Query psy15017
Match_columns 97
No_of_seqs 103 out of 1053
Neff 8.3
Searched_HMMs 46136
Date Fri Aug 16 18:17:37 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy15017.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/15017hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd01370 KISc_KIP3_like Kinesin 100.0 1.6E-29 3.4E-34 180.7 10.3 95 1-95 5-114 (338)
2 cd01373 KISc_KLP2_like Kinesin 100.0 6.3E-29 1.4E-33 177.6 11.0 92 1-92 6-98 (337)
3 cd01368 KISc_KIF23_like Kinesi 100.0 6E-29 1.3E-33 178.2 10.8 94 1-95 6-115 (345)
4 cd01367 KISc_KIF2_like Kinesin 100.0 9.1E-29 2E-33 175.8 10.6 94 1-95 6-111 (322)
5 cd01372 KISc_KIF4 Kinesin moto 100.0 1.2E-28 2.6E-33 176.1 9.6 91 1-91 6-96 (341)
6 KOG0243|consensus 100.0 1.1E-28 2.4E-33 191.9 9.9 91 1-91 54-151 (1041)
7 cd01365 KISc_KIF1A_KIF1B Kines 100.0 2.5E-28 5.3E-33 175.5 10.4 95 1-95 6-115 (356)
8 cd01371 KISc_KIF3 Kinesin moto 100.0 5.7E-28 1.2E-32 172.4 9.8 91 1-91 6-104 (333)
9 KOG4280|consensus 100.0 3.4E-28 7.4E-33 181.7 8.4 90 1-90 10-107 (574)
10 cd01369 KISc_KHC_KIF5 Kinesin 99.9 1.8E-27 3.9E-32 169.1 10.9 90 1-91 7-99 (325)
11 KOG0245|consensus 99.9 1.1E-27 2.4E-32 185.5 10.1 90 2-91 10-110 (1221)
12 cd01364 KISc_BimC_Eg5 Kinesin 99.9 2.6E-27 5.6E-32 169.9 10.3 92 1-92 7-105 (352)
13 cd01376 KISc_KID_like Kinesin 99.9 3.1E-27 6.8E-32 167.7 10.6 93 1-95 5-107 (319)
14 cd01374 KISc_CENP_E Kinesin mo 99.9 3.7E-27 8E-32 167.4 10.6 93 1-95 5-100 (321)
15 KOG0240|consensus 99.9 8.7E-27 1.9E-31 172.4 8.3 95 1-95 12-109 (607)
16 KOG0242|consensus 99.9 1.4E-26 3E-31 176.9 8.5 95 1-95 11-113 (675)
17 PLN03188 kinesin-12 family pro 99.9 5.4E-26 1.2E-30 179.1 9.6 85 1-90 103-187 (1320)
18 cd00106 KISc Kinesin motor dom 99.9 1.5E-25 3.2E-30 159.1 10.8 93 1-95 5-105 (328)
19 cd01366 KISc_C_terminal Kinesi 99.9 2.5E-25 5.4E-30 158.3 10.6 93 1-95 7-104 (329)
20 smart00129 KISc Kinesin motor, 99.9 3.7E-25 8E-30 157.6 11.0 95 1-95 5-106 (335)
21 cd01375 KISc_KIF9_like Kinesin 99.9 1.7E-25 3.8E-30 159.7 8.9 85 1-91 5-103 (334)
22 PF00225 Kinesin: Kinesin moto 99.9 6.4E-26 1.4E-30 161.4 6.5 92 3-94 1-102 (335)
23 KOG0246|consensus 99.9 3E-25 6.4E-30 164.6 8.3 92 1-92 213-315 (676)
24 KOG0239|consensus 99.9 4.2E-25 9.1E-30 168.6 7.9 93 1-95 319-420 (670)
25 KOG0241|consensus 99.9 1.1E-24 2.3E-29 168.5 8.3 95 1-95 9-120 (1714)
26 KOG0247|consensus 99.9 4.1E-21 8.9E-26 145.7 9.6 92 1-95 36-141 (809)
27 KOG0244|consensus 99.8 9.3E-20 2E-24 140.9 7.3 86 4-89 1-86 (913)
28 COG5059 KIP1 Kinesin-like prot 99.7 3.7E-18 7.9E-23 129.2 7.8 62 34-95 55-116 (568)
29 cd01363 Motor_domain Myosin an 99.7 2.6E-17 5.6E-22 109.2 5.9 42 52-94 8-49 (186)
30 COG0556 UvrB Helicase subunit 96.0 0.0078 1.7E-07 46.3 3.2 47 35-86 3-49 (663)
31 PF00308 Bac_DnaA: Bacterial d 95.7 0.0084 1.8E-07 40.7 2.2 50 35-87 3-52 (219)
32 PRK06893 DNA replication initi 95.3 0.024 5.2E-07 38.6 3.6 49 33-87 9-57 (229)
33 COG2805 PilT Tfp pilus assembl 95.2 0.012 2.6E-07 42.5 1.8 30 57-86 113-142 (353)
34 PRK06620 hypothetical protein; 95.0 0.028 6.1E-07 38.1 3.0 52 32-87 8-62 (214)
35 PRK09087 hypothetical protein; 94.8 0.033 7.2E-07 38.1 3.1 49 33-87 14-62 (226)
36 PRK00411 cdc6 cell division co 94.8 0.039 8.5E-07 40.0 3.6 54 33-86 19-72 (394)
37 TIGR02928 orc1/cdc6 family rep 94.6 0.03 6.6E-07 40.1 2.6 49 37-86 8-57 (365)
38 cd00009 AAA The AAA+ (ATPases 94.0 0.053 1.2E-06 32.7 2.5 27 60-86 10-36 (151)
39 PRK05642 DNA replication initi 93.9 0.061 1.3E-06 36.8 2.8 48 33-87 12-63 (234)
40 PRK08084 DNA replication initi 93.8 0.08 1.7E-06 36.2 3.2 49 33-87 15-63 (235)
41 PF01935 DUF87: Domain of unkn 93.4 0.025 5.5E-07 38.1 0.3 15 72-86 26-40 (229)
42 COG2804 PulE Type II secretory 93.4 0.042 9.1E-07 41.8 1.5 30 58-87 247-276 (500)
43 COG1474 CDC6 Cdc6-related prot 93.4 0.089 1.9E-06 38.6 3.1 26 61-86 33-59 (366)
44 PRK08116 hypothetical protein; 93.2 0.079 1.7E-06 37.1 2.5 51 35-87 80-132 (268)
45 PRK14086 dnaA chromosomal repl 93.1 0.079 1.7E-06 41.4 2.6 51 34-87 282-332 (617)
46 PF13245 AAA_19: Part of AAA d 93.1 0.045 9.7E-07 31.3 1.0 26 61-87 3-28 (76)
47 PRK12377 putative replication 93.0 0.14 3E-06 35.7 3.5 49 37-87 71-119 (248)
48 PF04851 ResIII: Type III rest 92.8 0.085 1.8E-06 33.5 2.1 19 69-87 25-43 (184)
49 COG1484 DnaC DNA replication p 92.7 0.16 3.6E-06 35.3 3.5 49 35-86 74-122 (254)
50 TIGR02533 type_II_gspE general 92.3 0.078 1.7E-06 40.3 1.6 28 60-87 233-260 (486)
51 PF05970 PIF1: PIF1-like helic 92.1 0.14 3.1E-06 37.2 2.7 37 46-86 3-39 (364)
52 PRK14088 dnaA chromosomal repl 92.1 0.13 2.9E-06 38.5 2.5 50 34-87 99-148 (440)
53 PRK07952 DNA replication prote 92.0 0.25 5.3E-06 34.4 3.7 50 35-86 67-116 (244)
54 TIGR00362 DnaA chromosomal rep 92.0 0.15 3.2E-06 37.5 2.7 50 35-87 105-154 (405)
55 PRK10436 hypothetical protein; 91.8 0.085 1.8E-06 39.9 1.3 28 60-87 209-236 (462)
56 TIGR01420 pilT_fam pilus retra 91.7 0.1 2.2E-06 37.8 1.5 29 59-87 112-140 (343)
57 PRK08727 hypothetical protein; 91.5 0.077 1.7E-06 36.3 0.8 18 70-87 42-59 (233)
58 TIGR02538 type_IV_pilB type IV 91.5 0.084 1.8E-06 40.7 1.0 28 60-87 307-334 (564)
59 TIGR03420 DnaA_homol_Hda DnaA 91.4 0.25 5.3E-06 33.0 3.1 47 34-86 9-55 (226)
60 PF00063 Myosin_head: Myosin h 91.4 0.16 3.5E-06 39.9 2.5 37 49-86 65-102 (689)
61 cd01129 PulE-GspE PulE/GspE Th 91.2 0.12 2.5E-06 36.2 1.4 28 60-87 71-98 (264)
62 PRK08181 transposase; Validate 91.1 0.32 7E-06 34.3 3.5 19 66-86 105-123 (269)
63 PF13604 AAA_30: AAA domain; P 91.0 0.12 2.6E-06 34.5 1.2 27 60-86 9-35 (196)
64 PF00437 T2SE: Type II/IV secr 91.0 0.1 2.2E-06 36.1 0.9 18 69-86 127-144 (270)
65 PRK08939 primosomal protein Dn 91.0 0.26 5.7E-06 35.3 3.0 50 37-87 124-174 (306)
66 smart00242 MYSc Myosin. Large 90.9 0.29 6.4E-06 38.6 3.5 37 49-86 72-109 (677)
67 PF07693 KAP_NTPase: KAP famil 90.9 0.22 4.8E-06 35.0 2.6 20 67-86 18-37 (325)
68 PF01695 IstB_IS21: IstB-like 90.9 0.23 5E-06 32.7 2.5 17 70-86 48-64 (178)
69 TIGR02524 dot_icm_DotB Dot/Icm 90.9 0.14 3E-06 37.5 1.6 24 63-86 128-151 (358)
70 COG0593 DnaA ATPase involved i 90.8 0.2 4.4E-06 37.4 2.4 52 33-87 80-131 (408)
71 PRK06835 DNA replication prote 90.6 0.22 4.7E-06 36.1 2.4 28 58-86 173-200 (329)
72 TIGR02525 plasmid_TraJ plasmid 90.5 0.15 3.2E-06 37.6 1.5 26 60-86 141-166 (372)
73 PRK06526 transposase; Provisio 90.5 0.15 3.4E-06 35.5 1.5 16 72-87 101-116 (254)
74 cd01377 MYSc_type_II Myosin mo 90.4 0.35 7.5E-06 38.4 3.5 37 49-86 71-108 (693)
75 cd01384 MYSc_type_XI Myosin mo 90.3 0.38 8.2E-06 38.1 3.6 36 50-86 69-105 (674)
76 TIGR02782 TrbB_P P-type conjug 90.2 0.17 3.6E-06 36.1 1.5 28 58-86 122-149 (299)
77 cd00124 MYSc Myosin motor doma 90.2 0.37 8.1E-06 38.1 3.5 36 50-86 67-103 (679)
78 PHA00729 NTP-binding motif con 90.2 0.34 7.4E-06 33.4 2.9 29 58-86 6-34 (226)
79 cd01383 MYSc_type_VIII Myosin 90.1 0.43 9.3E-06 37.8 3.8 36 50-86 73-109 (677)
80 PF01637 Arch_ATPase: Archaeal 90.1 0.14 3E-06 33.7 0.9 23 64-86 15-37 (234)
81 cd01378 MYSc_type_I Myosin mot 90.0 0.42 9.2E-06 37.8 3.7 36 50-86 67-103 (674)
82 cd01382 MYSc_type_VI Myosin mo 90.0 0.37 7.9E-06 38.4 3.3 36 50-86 72-108 (717)
83 cd01381 MYSc_type_VII Myosin m 89.9 0.45 9.7E-06 37.7 3.7 37 49-86 66-103 (671)
84 COG5008 PilU Tfp pilus assembl 89.9 0.28 6E-06 35.3 2.3 28 59-86 117-144 (375)
85 cd01385 MYSc_type_IX Myosin mo 89.8 0.42 9.2E-06 37.9 3.5 36 50-86 75-111 (692)
86 PRK13894 conjugal transfer ATP 89.7 0.24 5.2E-06 35.7 1.9 27 59-86 139-165 (319)
87 PRK08903 DnaA regulatory inact 89.7 0.34 7.3E-06 32.6 2.6 50 32-86 10-59 (227)
88 cd01387 MYSc_type_XV Myosin mo 89.5 0.5 1.1E-05 37.4 3.7 36 50-86 68-104 (677)
89 cd01380 MYSc_type_V Myosin mot 89.5 0.45 9.7E-06 37.8 3.5 36 50-86 67-103 (691)
90 PRK13900 type IV secretion sys 89.4 0.28 6.1E-06 35.5 2.1 27 59-86 151-177 (332)
91 PRK13833 conjugal transfer pro 89.4 0.26 5.5E-06 35.7 1.9 27 59-86 135-161 (323)
92 TIGR03015 pepcterm_ATPase puta 89.3 0.26 5.5E-06 33.8 1.8 22 65-86 39-60 (269)
93 cd01130 VirB11-like_ATPase Typ 89.2 0.31 6.7E-06 32.0 2.1 27 59-86 16-42 (186)
94 PRK14087 dnaA chromosomal repl 89.0 0.29 6.4E-06 36.8 2.1 49 36-87 111-159 (450)
95 PF00270 DEAD: DEAD/DEAH box h 88.8 0.42 9.1E-06 30.0 2.5 25 60-86 7-31 (169)
96 PF00580 UvrD-helicase: UvrD/R 88.8 0.15 3.3E-06 35.2 0.4 20 68-87 12-31 (315)
97 PRK12402 replication factor C 88.4 0.45 9.9E-06 33.6 2.6 21 66-86 33-53 (337)
98 PRK00149 dnaA chromosomal repl 88.2 0.32 7E-06 36.3 1.8 50 34-86 116-165 (450)
99 TIGR00631 uvrb excinuclease AB 88.0 0.33 7.2E-06 38.3 1.8 46 37-87 2-47 (655)
100 PTZ00112 origin recognition co 88.0 0.64 1.4E-05 38.5 3.4 20 67-86 779-798 (1164)
101 PF06309 Torsin: Torsin; Inte 87.9 0.91 2E-05 28.7 3.5 18 68-85 51-69 (127)
102 PRK13851 type IV secretion sys 87.8 0.39 8.4E-06 35.0 2.0 27 59-86 153-179 (344)
103 PRK09183 transposase/IS protei 87.6 0.39 8.4E-06 33.5 1.9 19 66-86 101-119 (259)
104 PRK12422 chromosomal replicati 87.6 0.65 1.4E-05 35.0 3.1 50 34-86 105-158 (445)
105 PF13191 AAA_16: AAA ATPase do 87.5 0.18 3.9E-06 32.2 0.1 21 66-86 21-41 (185)
106 cd01386 MYSc_type_XVIII Myosin 87.3 0.73 1.6E-05 37.1 3.3 36 50-86 67-103 (767)
107 PF13086 AAA_11: AAA domain; P 86.6 0.32 7E-06 32.0 0.9 25 61-86 10-34 (236)
108 PRK06547 hypothetical protein; 86.5 0.88 1.9E-05 29.8 3.0 25 61-85 7-31 (172)
109 PF02562 PhoH: PhoH-like prote 86.4 0.54 1.2E-05 31.9 2.0 18 68-85 18-35 (205)
110 PF01580 FtsK_SpoIIIE: FtsK/Sp 86.2 0.22 4.9E-06 32.9 0.0 16 71-86 40-55 (205)
111 PF10923 DUF2791: P-loop Domai 86.1 0.99 2.2E-05 33.9 3.4 27 60-86 40-66 (416)
112 PRK06921 hypothetical protein; 85.9 0.4 8.7E-06 33.6 1.2 19 69-87 117-135 (266)
113 COG3842 PotA ABC-type spermidi 85.6 0.27 5.8E-06 36.1 0.2 22 75-96 37-60 (352)
114 PF06048 DUF927: Domain of unk 85.0 1.2 2.6E-05 31.4 3.2 32 54-86 179-210 (286)
115 PTZ00014 myosin-A; Provisional 84.9 1.2 2.6E-05 36.1 3.5 26 60-85 173-199 (821)
116 TIGR03499 FlhF flagellar biosy 84.6 1.5 3.3E-05 30.9 3.6 16 71-86 196-211 (282)
117 TIGR02788 VirB11 P-type DNA tr 84.6 0.99 2.1E-05 32.1 2.7 29 57-86 133-161 (308)
118 PRK11776 ATP-dependent RNA hel 84.2 0.96 2.1E-05 33.7 2.6 24 60-85 34-57 (460)
119 KOG2543|consensus 84.1 0.37 8E-06 36.0 0.3 16 71-86 32-47 (438)
120 KOG0989|consensus 83.8 1.2 2.6E-05 32.5 2.8 22 65-86 53-74 (346)
121 COG1419 FlhF Flagellar GTP-bin 83.7 1 2.2E-05 33.7 2.5 39 48-86 178-220 (407)
122 cd01379 MYSc_type_III Myosin m 83.4 1.4 3E-05 34.9 3.2 36 50-86 67-103 (653)
123 PRK12723 flagellar biosynthesi 83.3 1.7 3.6E-05 32.3 3.5 18 69-86 174-191 (388)
124 COG4962 CpaF Flp pilus assembl 83.1 0.81 1.8E-05 33.6 1.7 25 61-86 166-190 (355)
125 PRK13764 ATPase; Provisional 82.9 0.64 1.4E-05 36.4 1.2 17 70-86 258-274 (602)
126 smart00487 DEXDc DEAD-like hel 82.8 0.94 2E-05 28.5 1.8 26 61-87 17-42 (201)
127 PHA02544 44 clamp loader, smal 82.3 1.3 2.7E-05 31.2 2.4 21 66-86 39-60 (316)
128 PRK04328 hypothetical protein; 81.9 1.4 2.9E-05 30.5 2.4 26 59-84 10-38 (249)
129 PRK11192 ATP-dependent RNA hel 81.7 1.3 2.9E-05 32.6 2.5 24 60-85 31-54 (434)
130 PRK10590 ATP-dependent RNA hel 81.7 1.4 3.1E-05 32.9 2.6 24 60-85 31-54 (456)
131 KOG1547|consensus 81.6 2.7 5.9E-05 29.9 3.8 32 53-84 29-61 (336)
132 PRK10536 hypothetical protein; 80.9 1.3 2.7E-05 31.4 2.0 41 36-86 51-91 (262)
133 COG4096 HsdR Type I site-speci 80.8 2.8 6.1E-05 34.2 4.1 38 49-87 165-203 (875)
134 cd01123 Rad51_DMC1_radA Rad51_ 80.8 1.6 3.4E-05 29.3 2.4 29 58-86 5-36 (235)
135 PTZ00424 helicase 45; Provisio 80.7 1.5 3.2E-05 31.8 2.4 25 59-85 57-81 (401)
136 TIGR00635 ruvB Holliday juncti 80.7 2 4.2E-05 30.1 2.9 41 45-86 5-47 (305)
137 COG3829 RocR Transcriptional r 80.6 1.5 3.3E-05 34.0 2.5 43 34-82 239-281 (560)
138 PRK00440 rfc replication facto 80.6 1.7 3.6E-05 30.4 2.6 21 66-86 35-55 (319)
139 PRK04837 ATP-dependent RNA hel 80.6 1.5 3.2E-05 32.3 2.4 24 60-85 38-61 (423)
140 PLN03025 replication factor C 80.5 1.7 3.7E-05 30.9 2.6 17 71-87 36-52 (319)
141 PRK09270 nucleoside triphospha 80.4 3 6.5E-05 28.2 3.7 38 49-86 12-50 (229)
142 TIGR00348 hsdR type I site-spe 80.3 1.7 3.7E-05 34.3 2.8 29 58-87 248-281 (667)
143 cd00268 DEADc DEAD-box helicas 79.8 2 4.3E-05 28.0 2.6 23 61-85 30-52 (203)
144 PF06414 Zeta_toxin: Zeta toxi 79.7 0.78 1.7E-05 30.4 0.6 19 68-86 14-32 (199)
145 COG1201 Lhr Lhr-like helicases 79.4 2 4.2E-05 35.0 2.8 24 60-85 30-53 (814)
146 KOG2373|consensus 79.3 2.6 5.7E-05 31.6 3.2 27 59-86 261-290 (514)
147 PHA02653 RNA helicase NPH-II; 79.1 2.1 4.5E-05 34.1 2.9 24 60-85 172-195 (675)
148 PRK14722 flhF flagellar biosyn 78.8 0.89 1.9E-05 33.6 0.8 18 69-86 137-154 (374)
149 PF10236 DAP3: Mitochondrial r 78.8 1.8 4E-05 30.9 2.3 22 65-86 19-40 (309)
150 COG1223 Predicted ATPase (AAA+ 78.1 0.92 2E-05 32.7 0.6 21 66-86 148-168 (368)
151 TIGR01618 phage_P_loop phage n 77.6 1 2.3E-05 30.8 0.8 19 69-87 12-30 (220)
152 PRK11634 ATP-dependent RNA hel 77.6 2.1 4.6E-05 33.7 2.5 24 60-85 36-59 (629)
153 PRK09361 radB DNA repair and r 77.4 2.8 6E-05 28.1 2.8 30 57-86 8-40 (225)
154 PRK01297 ATP-dependent RNA hel 77.4 2.1 4.6E-05 32.1 2.4 25 59-85 116-140 (475)
155 PRK11331 5-methylcytosine-spec 77.4 2.9 6.3E-05 31.8 3.1 26 59-86 186-211 (459)
156 TIGR00614 recQ_fam ATP-depende 77.3 2.5 5.4E-05 31.8 2.8 24 60-85 19-42 (470)
157 PRK11448 hsdR type I restricti 77.3 1.8 3.9E-05 36.3 2.2 27 60-87 425-451 (1123)
158 COG1136 SalX ABC-type antimicr 77.1 1 2.2E-05 31.1 0.6 24 73-96 35-60 (226)
159 TIGR00376 DNA helicase, putati 76.9 1.8 4E-05 34.0 2.0 17 71-87 175-191 (637)
160 PRK13341 recombination factor 76.8 1.8 3.9E-05 34.7 2.0 21 66-86 49-69 (725)
161 PF12775 AAA_7: P-loop contain 76.8 1.2 2.7E-05 31.3 1.0 26 60-86 25-50 (272)
162 PF02456 Adeno_IVa2: Adenoviru 76.6 1 2.3E-05 32.9 0.6 15 72-86 90-104 (369)
163 TIGR02881 spore_V_K stage V sp 76.5 1 2.2E-05 31.1 0.5 18 69-86 42-59 (261)
164 PF03193 DUF258: Protein of un 76.4 2.7 5.8E-05 27.5 2.4 24 61-86 29-52 (161)
165 PLN00206 DEAD-box ATP-dependen 76.3 3.1 6.6E-05 31.8 3.0 24 60-85 151-174 (518)
166 PRK04537 ATP-dependent RNA hel 75.6 2.6 5.7E-05 32.7 2.5 24 60-85 39-62 (572)
167 PRK06067 flagellar accessory p 75.6 2.7 5.8E-05 28.4 2.3 28 58-85 11-41 (234)
168 TIGR02746 TraC-F-type type-IV 75.5 0.98 2.1E-05 36.0 0.2 18 69-86 430-447 (797)
169 PHA01747 putative ATP-dependen 75.4 1.5 3.2E-05 32.8 1.1 29 58-86 179-207 (425)
170 TIGR02237 recomb_radB DNA repa 75.4 2.1 4.5E-05 28.3 1.7 17 69-85 12-28 (209)
171 PRK13342 recombination factor 75.1 2 4.3E-05 31.8 1.7 39 47-86 15-53 (413)
172 COG1125 OpuBA ABC-type proline 74.8 1.2 2.5E-05 31.9 0.4 12 75-86 33-44 (309)
173 PRK11057 ATP-dependent DNA hel 74.7 3 6.5E-05 32.5 2.7 24 60-85 33-56 (607)
174 TIGR02640 gas_vesic_GvpN gas v 74.6 4.1 8.9E-05 28.3 3.1 24 60-85 14-37 (262)
175 PF05673 DUF815: Protein of un 74.4 2.1 4.5E-05 30.1 1.6 49 33-86 20-69 (249)
176 PF00931 NB-ARC: NB-ARC domain 74.3 5.8 0.00013 27.2 3.8 29 57-85 5-35 (287)
177 PRK06696 uridine kinase; Valid 73.9 5.2 0.00011 26.9 3.4 26 59-84 9-37 (223)
178 cd01394 radB RadB. The archaea 73.7 4.1 8.8E-05 27.1 2.8 28 59-86 6-36 (218)
179 PRK10917 ATP-dependent DNA hel 73.5 4 8.8E-05 32.3 3.2 37 45-85 262-298 (681)
180 TIGR03744 traC_PFL_4706 conjug 73.5 1.2 2.6E-05 36.4 0.2 19 68-86 474-492 (893)
181 PF00025 Arf: ADP-ribosylation 73.5 3.6 7.7E-05 26.6 2.4 27 60-86 4-31 (175)
182 PF05496 RuvB_N: Holliday junc 72.9 8.5 0.00018 26.8 4.3 41 43-84 23-65 (233)
183 PRK03992 proteasome-activating 72.7 1.5 3.2E-05 32.4 0.5 18 69-86 165-182 (389)
184 COG5019 CDC3 Septin family pro 72.7 2.8 6.1E-05 31.1 1.9 20 65-84 19-38 (373)
185 PF12774 AAA_6: Hydrolytic ATP 72.5 3.3 7.1E-05 28.5 2.2 14 73-86 36-49 (231)
186 TIGR02688 conserved hypothetic 72.4 3.8 8.3E-05 31.1 2.6 25 60-86 202-226 (449)
187 PF13555 AAA_29: P-loop contai 72.1 2.4 5.2E-05 23.3 1.2 13 73-85 27-39 (62)
188 COG5022 Myosin heavy chain [Cy 72.1 5.3 0.00011 34.4 3.6 34 50-84 133-167 (1463)
189 KOG0340|consensus 72.0 2.5 5.4E-05 31.5 1.5 26 59-86 36-61 (442)
190 TIGR03158 cas3_cyano CRISPR-as 71.7 4 8.7E-05 29.6 2.6 25 61-85 6-30 (357)
191 PRK00771 signal recognition pa 71.6 7.2 0.00016 29.5 4.0 19 68-86 94-112 (437)
192 PRK05703 flhF flagellar biosyn 71.3 1.7 3.6E-05 32.6 0.5 16 71-86 223-238 (424)
193 TIGR03238 dnd_assoc_3 dnd syst 71.1 5.2 0.00011 30.8 3.1 18 70-87 33-50 (504)
194 PRK10416 signal recognition pa 71.1 6.2 0.00013 28.4 3.4 18 69-86 114-131 (318)
195 PHA02244 ATPase-like protein 71.0 6.5 0.00014 29.3 3.5 22 63-86 115-136 (383)
196 TIGR01242 26Sp45 26S proteasom 70.8 1.7 3.6E-05 31.6 0.5 17 70-86 157-173 (364)
197 PF13476 AAA_23: AAA domain; P 70.8 1.9 4.2E-05 27.6 0.8 17 70-86 20-36 (202)
198 PTZ00361 26 proteosome regulat 70.8 6 0.00013 29.9 3.4 16 71-86 219-234 (438)
199 PTZ00110 helicase; Provisional 70.6 4.2 9.1E-05 31.3 2.6 24 60-85 160-183 (545)
200 TIGR01389 recQ ATP-dependent D 70.4 4.5 9.7E-05 31.3 2.7 24 60-85 21-44 (591)
201 TIGR03819 heli_sec_ATPase heli 70.3 2.7 5.9E-05 30.6 1.4 30 56-86 166-195 (340)
202 PRK14974 cell division protein 70.2 8.9 0.00019 28.0 4.1 18 69-86 140-157 (336)
203 TIGR01817 nifA Nif-specific re 70.1 3.7 8.1E-05 31.3 2.2 44 36-85 192-235 (534)
204 TIGR03881 KaiC_arch_4 KaiC dom 70.1 4.5 9.7E-05 27.1 2.4 28 59-86 7-37 (229)
205 TIGR01074 rep ATP-dependent DN 69.8 1.9 4.2E-05 33.7 0.6 18 70-87 15-32 (664)
206 cd01127 TrwB Bacterial conjuga 69.8 1.7 3.6E-05 32.2 0.3 17 70-86 43-59 (410)
207 PRK04195 replication factor C 69.5 4.1 8.8E-05 30.8 2.3 26 61-86 30-56 (482)
208 TIGR00643 recG ATP-dependent D 69.2 5.6 0.00012 31.2 3.0 36 46-85 237-272 (630)
209 KOG0926|consensus 69.1 3.1 6.8E-05 34.2 1.7 20 67-86 269-288 (1172)
210 cd01393 recA_like RecA is a b 69.0 5.8 0.00013 26.3 2.8 29 58-86 5-36 (226)
211 PRK00080 ruvB Holliday junctio 68.8 5.3 0.00012 28.5 2.7 17 70-86 52-68 (328)
212 KOG0987|consensus 68.7 6.9 0.00015 30.3 3.4 34 48-86 121-154 (540)
213 PRK11889 flhF flagellar biosyn 68.5 6.8 0.00015 29.7 3.2 17 70-86 242-258 (436)
214 PLN00020 ribulose bisphosphate 68.3 7.2 0.00016 29.3 3.3 51 35-85 110-164 (413)
215 TIGR00929 VirB4_CagE type IV s 68.3 2 4.2E-05 34.1 0.4 18 69-86 434-451 (785)
216 PRK13767 ATP-dependent helicas 68.2 4.9 0.00011 32.8 2.6 23 61-85 41-63 (876)
217 PRK01172 ski2-like helicase; P 68.1 4.7 0.0001 31.7 2.4 22 62-85 32-53 (674)
218 TIGR03817 DECH_helic helicase/ 68.1 5 0.00011 32.2 2.6 24 60-85 44-67 (742)
219 COG2256 MGS1 ATPase related to 68.0 2.9 6.3E-05 31.5 1.2 41 43-84 23-63 (436)
220 KOG3859|consensus 67.9 3.3 7.2E-05 30.1 1.4 30 57-86 29-59 (406)
221 COG0396 sufC Cysteine desulfur 67.8 3.7 8E-05 28.8 1.6 30 63-92 18-56 (251)
222 COG0552 FtsY Signal recognitio 67.7 3.5 7.6E-05 30.2 1.5 20 67-86 137-156 (340)
223 cd00820 PEPCK_HprK Phosphoenol 67.4 2.8 6.1E-05 25.6 0.9 16 71-86 17-32 (107)
224 PF10412 TrwB_AAD_bind: Type I 67.4 1.8 3.9E-05 31.9 0.0 15 72-86 18-32 (386)
225 PF00158 Sigma54_activat: Sigm 67.3 7.5 0.00016 25.3 3.0 19 66-84 19-37 (168)
226 TIGR02903 spore_lon_C ATP-depe 66.9 5.7 0.00012 31.2 2.7 42 37-86 151-192 (615)
227 KOG0953|consensus 66.6 3 6.4E-05 32.9 1.1 16 71-86 193-208 (700)
228 TIGR03877 thermo_KaiC_1 KaiC d 66.6 6.6 0.00014 26.7 2.7 26 59-84 8-36 (237)
229 PRK05580 primosome assembly pr 66.5 4.5 9.7E-05 32.1 2.0 16 71-86 164-179 (679)
230 PRK11131 ATP-dependent RNA hel 66.3 5.4 0.00012 34.2 2.6 21 64-85 85-105 (1294)
231 PRK09302 circadian clock prote 66.3 5.6 0.00012 30.2 2.5 28 57-84 16-46 (509)
232 TIGR03878 thermo_KaiC_2 KaiC d 66.1 5.6 0.00012 27.6 2.3 16 69-84 36-51 (259)
233 PRK13721 conjugal transfer ATP 65.9 2.2 4.8E-05 34.6 0.3 18 69-86 449-466 (844)
234 PF06745 KaiC: KaiC; InterPro 65.7 3.5 7.6E-05 27.6 1.2 25 60-84 7-34 (226)
235 COG1122 CbiO ABC-type cobalt t 65.7 3.6 7.7E-05 28.5 1.2 16 71-86 32-47 (235)
236 KOG1803|consensus 65.6 6.6 0.00014 31.1 2.7 25 61-86 194-218 (649)
237 KOG0335|consensus 65.6 3.2 6.9E-05 31.8 1.0 23 61-85 105-127 (482)
238 TIGR02236 recomb_radA DNA repa 65.6 7 0.00015 27.6 2.7 28 59-86 82-112 (310)
239 COG1126 GlnQ ABC-type polar am 65.3 3.8 8.3E-05 28.5 1.3 14 73-86 32-45 (240)
240 COG1219 ClpX ATP-dependent pro 65.3 3.1 6.7E-05 30.8 0.9 15 70-84 98-112 (408)
241 TIGR02902 spore_lonB ATP-depen 65.2 7.9 0.00017 29.9 3.1 23 63-85 80-102 (531)
242 KOG0354|consensus 65.0 6.5 0.00014 31.7 2.7 24 59-85 69-92 (746)
243 COG0630 VirB11 Type IV secreto 65.0 2.3 4.9E-05 30.6 0.2 16 71-86 145-160 (312)
244 PF01293 PEPCK_ATP: Phosphoeno 64.9 3.3 7.1E-05 31.6 1.0 14 71-84 212-225 (466)
245 PRK15429 formate hydrogenlyase 64.8 5.6 0.00012 31.5 2.3 19 67-85 397-415 (686)
246 cd03274 ABC_SMC4_euk Eukaryoti 64.7 1.9 4.1E-05 29.0 -0.3 13 74-86 30-42 (212)
247 PF03215 Rad17: Rad17 cell cyc 64.5 5.2 0.00011 30.9 2.0 27 60-86 34-62 (519)
248 TIGR03880 KaiC_arch_3 KaiC dom 64.2 7 0.00015 26.1 2.5 26 60-85 4-32 (224)
249 TIGR02655 circ_KaiC circadian 64.2 6.7 0.00014 29.8 2.5 26 59-84 8-36 (484)
250 COG1162 Predicted GTPases [Gen 64.1 5.9 0.00013 28.6 2.1 25 60-86 157-181 (301)
251 COG3839 MalK ABC-type sugar tr 63.9 3.2 7E-05 30.4 0.8 21 74-94 34-56 (338)
252 COG0467 RAD55 RecA-superfamily 63.8 6.3 0.00014 27.1 2.2 25 60-84 11-38 (260)
253 PRK10820 DNA-binding transcrip 63.8 5.4 0.00012 30.6 2.0 46 35-86 199-244 (520)
254 PRK00300 gmk guanylate kinase; 63.7 4.9 0.00011 26.3 1.6 16 70-85 6-21 (205)
255 TIGR02329 propionate_PrpR prop 63.5 5.9 0.00013 30.6 2.2 43 37-85 209-251 (526)
256 PRK15424 propionate catabolism 63.3 6.3 0.00014 30.6 2.3 19 66-84 239-257 (538)
257 PF02534 T4SS-DNA_transf: Type 63.2 6.9 0.00015 29.2 2.5 18 70-87 45-62 (469)
258 PRK12724 flagellar biosynthesi 63.1 9.9 0.00021 28.8 3.2 18 69-86 223-240 (432)
259 cd02019 NK Nucleoside/nucleoti 63.0 4.2 9.1E-05 22.3 1.0 13 73-85 3-15 (69)
260 cd03240 ABC_Rad50 The catalyti 62.6 4.5 9.7E-05 27.0 1.2 16 71-86 24-39 (204)
261 CHL00081 chlI Mg-protoporyphyr 62.6 6.7 0.00015 28.8 2.2 44 35-86 12-55 (350)
262 PRK06995 flhF flagellar biosyn 62.5 3.1 6.6E-05 31.9 0.5 17 70-86 257-273 (484)
263 PF14532 Sigma54_activ_2: Sigm 62.4 3.2 7E-05 25.7 0.5 19 67-85 19-37 (138)
264 PRK10689 transcription-repair 62.4 7.9 0.00017 32.8 2.8 38 44-85 600-637 (1147)
265 COG1483 Predicted ATPase (AAA+ 62.4 5.5 0.00012 32.2 1.9 20 68-87 66-85 (774)
266 TIGR02880 cbbX_cfxQ probable R 62.2 3.5 7.7E-05 29.0 0.7 16 71-86 60-75 (284)
267 TIGR02238 recomb_DMC1 meiotic 62.1 11 0.00023 27.2 3.1 30 57-86 81-113 (313)
268 PF05872 DUF853: Bacterial pro 62.1 3 6.5E-05 32.0 0.4 13 75-87 25-37 (502)
269 CHL00181 cbbX CbbX; Provisiona 62.0 3.6 7.9E-05 29.1 0.7 15 72-86 62-76 (287)
270 cd01853 Toc34_like Toc34-like 62.0 3.7 8E-05 28.5 0.8 20 67-86 29-48 (249)
271 PRK04301 radA DNA repair and r 62.0 9.3 0.0002 27.2 2.8 28 59-86 89-119 (317)
272 COG1118 CysA ABC-type sulfate/ 61.9 3 6.6E-05 30.4 0.3 21 74-94 33-55 (345)
273 PRK11664 ATP-dependent RNA hel 61.5 9.8 0.00021 31.0 3.1 28 57-86 10-37 (812)
274 COG0513 SrmB Superfamily II DN 61.4 5.9 0.00013 30.3 1.8 24 59-84 58-81 (513)
275 KOG2655|consensus 61.3 7.3 0.00016 28.9 2.2 22 63-84 15-36 (366)
276 COG1074 RecB ATP-dependent exo 61.2 3.6 7.8E-05 34.6 0.7 21 67-87 14-34 (1139)
277 PRK13531 regulatory ATPase Rav 61.1 9 0.00019 29.6 2.7 26 59-86 31-56 (498)
278 PRK11784 tRNA 2-selenouridine 61.1 5.8 0.00013 29.0 1.7 33 53-86 126-158 (345)
279 KOG2228|consensus 61.0 18 0.00039 27.0 4.2 35 48-86 32-66 (408)
280 TIGR01073 pcrA ATP-dependent D 61.0 3.7 7.9E-05 32.6 0.7 19 69-87 17-35 (726)
281 TIGR01075 uvrD DNA helicase II 61.0 3.7 8.1E-05 32.6 0.7 18 70-87 18-35 (715)
282 PRK12726 flagellar biosynthesi 60.8 3.5 7.7E-05 30.9 0.5 16 71-86 208-223 (407)
283 KOG0924|consensus 60.7 5.7 0.00012 32.3 1.6 20 67-86 369-388 (1042)
284 KOG0348|consensus 60.6 6.5 0.00014 31.0 1.9 24 59-84 166-189 (708)
285 KOG0330|consensus 60.1 6.8 0.00015 29.6 1.9 25 59-85 90-114 (476)
286 TIGR00235 udk uridine kinase. 60.0 5.1 0.00011 26.6 1.2 16 71-86 8-23 (207)
287 TIGR01967 DEAH_box_HrpA ATP-de 59.9 8.9 0.00019 32.9 2.7 18 69-86 82-99 (1283)
288 PRK10865 protein disaggregatio 59.8 8.6 0.00019 31.5 2.6 47 39-85 567-614 (857)
289 PRK11773 uvrD DNA-dependent he 59.5 4 8.6E-05 32.5 0.7 18 70-87 23-40 (721)
290 PRK09401 reverse gyrase; Revie 59.5 9.1 0.0002 32.5 2.7 24 60-85 88-111 (1176)
291 KOG0328|consensus 59.3 9.3 0.0002 27.9 2.4 25 60-86 57-81 (400)
292 smart00489 DEXDc3 DEAD-like he 59.3 9.2 0.0002 27.1 2.4 37 45-87 9-45 (289)
293 smart00488 DEXDc2 DEAD-like he 59.3 9.2 0.0002 27.1 2.4 37 45-87 9-45 (289)
294 TIGR01241 FtsH_fam ATP-depende 59.1 4.4 9.5E-05 30.7 0.8 16 71-86 90-105 (495)
295 PRK14723 flhF flagellar biosyn 59.0 4.4 9.6E-05 32.8 0.8 17 70-86 186-202 (767)
296 PRK14721 flhF flagellar biosyn 58.9 4.5 9.7E-05 30.5 0.8 17 70-86 192-208 (420)
297 TIGR00064 ftsY signal recognit 58.9 5.1 0.00011 28.2 1.0 17 70-86 73-89 (272)
298 KOG0922|consensus 58.8 6.5 0.00014 31.3 1.7 18 69-86 66-83 (674)
299 KOG1514|consensus 58.5 17 0.00036 29.5 3.8 21 67-87 420-440 (767)
300 PRK13889 conjugal transfer rel 58.2 7.3 0.00016 32.5 1.9 26 60-86 354-379 (988)
301 PRK14527 adenylate kinase; Pro 58.2 6.1 0.00013 25.8 1.3 15 70-84 7-21 (191)
302 COG3598 RepA RecA-family ATPas 58.0 7.2 0.00016 28.9 1.7 47 38-86 59-106 (402)
303 PRK05480 uridine/cytidine kina 57.7 6.7 0.00015 25.9 1.4 16 71-86 8-23 (209)
304 PTZ00454 26S protease regulato 57.5 5.3 0.00011 29.7 1.0 50 37-86 142-196 (398)
305 PF00005 ABC_tran: ABC transpo 57.5 6.3 0.00014 23.9 1.2 16 71-86 13-28 (137)
306 PHA02624 large T antigen; Prov 57.5 13 0.00027 29.7 3.0 26 60-85 420-447 (647)
307 TIGR02639 ClpA ATP-dependent C 57.4 10 0.00022 30.3 2.6 28 60-87 194-221 (731)
308 TIGR02012 tigrfam_recA protein 57.3 12 0.00026 27.2 2.8 30 56-85 38-71 (321)
309 TIGR00580 mfd transcription-re 57.2 9.9 0.00021 31.5 2.5 25 62-86 465-489 (926)
310 COG5519 Superfamily II helicas 57.2 23 0.00049 27.9 4.3 44 42-86 162-205 (562)
311 PRK13873 conjugal transfer ATP 57.1 4.7 0.0001 32.6 0.7 16 71-86 443-458 (811)
312 COG1131 CcmA ABC-type multidru 57.1 2.9 6.3E-05 29.6 -0.4 12 75-86 37-48 (293)
313 PRK14970 DNA polymerase III su 56.9 11 0.00025 27.1 2.6 27 60-86 29-56 (367)
314 TIGR03783 Bac_Flav_CT_G Bacter 56.9 3.7 8E-05 33.5 0.1 18 69-86 438-455 (829)
315 PHA02774 E1; Provisional 56.8 11 0.00024 29.8 2.7 25 61-85 424-450 (613)
316 PRK10463 hydrogenase nickel in 56.7 8.8 0.00019 27.5 1.9 28 59-86 93-121 (290)
317 PLN03187 meiotic recombination 56.7 13 0.00027 27.3 2.8 29 56-84 110-141 (344)
318 cd00983 recA RecA is a bacter 56.5 13 0.00028 27.1 2.8 31 55-85 37-71 (325)
319 KOG0780|consensus 56.0 8.7 0.00019 29.1 1.9 38 49-86 76-118 (483)
320 KOG0739|consensus 56.0 6.4 0.00014 29.0 1.1 49 37-85 130-182 (439)
321 PF02463 SMC_N: RecF/RecN/SMC 55.9 6.3 0.00014 26.1 1.1 14 71-84 26-39 (220)
322 PRK14961 DNA polymerase III su 55.8 13 0.00029 27.0 2.8 35 48-86 20-55 (363)
323 cd03279 ABC_sbcCD SbcCD and ot 55.5 5 0.00011 26.8 0.5 16 71-86 30-45 (213)
324 PF13166 AAA_13: AAA domain 55.3 7.6 0.00017 30.5 1.6 14 71-84 18-31 (712)
325 TIGR01970 DEAH_box_HrpB ATP-de 54.9 12 0.00025 30.7 2.5 16 70-85 18-33 (819)
326 PRK11388 DNA-binding transcrip 54.3 11 0.00024 29.5 2.3 18 68-85 347-364 (638)
327 TIGR00554 panK_bact pantothena 54.1 14 0.00031 26.4 2.6 17 70-86 63-79 (290)
328 PF02367 UPF0079: Uncharacteri 54.0 20 0.00044 22.3 3.1 17 70-86 16-32 (123)
329 PTZ00035 Rad51 protein; Provis 53.9 12 0.00025 27.3 2.2 31 56-86 102-135 (337)
330 PRK05342 clpX ATP-dependent pr 53.9 6.5 0.00014 29.4 1.0 16 70-85 109-124 (412)
331 PF14553 YqbF: YqbF, hypotheti 53.9 6.6 0.00014 20.1 0.7 10 80-89 2-11 (43)
332 PRK05298 excinuclease ABC subu 53.7 8.7 0.00019 30.4 1.7 48 35-87 3-50 (652)
333 PF11602 NTPase_P4: ATPase P4 53.7 6 0.00013 28.3 0.7 21 69-89 111-131 (320)
334 PRK00454 engB GTP-binding prot 53.7 8.5 0.00018 24.7 1.4 28 59-86 14-41 (196)
335 KOG3354|consensus 53.6 11 0.00024 25.1 1.9 18 67-84 10-27 (191)
336 smart00763 AAA_PrkA PrkA AAA d 53.4 27 0.00058 25.9 4.0 38 47-84 54-93 (361)
337 TIGR02768 TraA_Ti Ti-type conj 53.4 9.3 0.0002 30.7 1.8 27 60-87 360-386 (744)
338 PRK09354 recA recombinase A; P 53.3 16 0.00034 26.9 2.8 31 55-85 42-76 (349)
339 KOG0160|consensus 53.3 12 0.00026 30.8 2.4 23 64-86 89-111 (862)
340 PRK13891 conjugal transfer pro 53.1 5.3 0.00011 32.6 0.4 17 70-86 489-505 (852)
341 COG4148 ModC ABC-type molybdat 52.8 6 0.00013 28.8 0.6 12 75-86 30-41 (352)
342 KOG0745|consensus 52.8 6.9 0.00015 30.1 1.0 15 70-84 227-241 (564)
343 TIGR03117 cas_csf4 CRISPR-asso 52.8 16 0.00034 29.1 2.9 31 49-85 2-32 (636)
344 COG1198 PriA Primosomal protei 52.7 14 0.0003 29.9 2.6 33 46-84 200-232 (730)
345 PRK15483 type III restriction- 52.7 3 6.5E-05 34.6 -1.0 15 74-88 64-78 (986)
346 PRK12337 2-phosphoglycerate ki 52.7 11 0.00024 29.0 2.0 20 67-86 253-272 (475)
347 KOG0923|consensus 52.5 10 0.00022 30.8 1.8 20 67-86 278-297 (902)
348 PRK05541 adenylylsulfate kinas 52.4 8.4 0.00018 24.7 1.2 15 71-85 9-23 (176)
349 TIGR00959 ffh signal recogniti 52.3 8.3 0.00018 29.1 1.3 18 69-86 99-116 (428)
350 TIGR01425 SRP54_euk signal rec 52.1 28 0.00061 26.4 4.0 18 69-86 100-117 (429)
351 PRK10867 signal recognition pa 51.9 8.7 0.00019 29.0 1.4 18 69-86 100-117 (433)
352 PRK08533 flagellar accessory p 51.9 8.9 0.00019 26.1 1.3 17 69-85 24-40 (230)
353 PRK13946 shikimate kinase; Pro 51.6 7.5 0.00016 25.3 0.9 15 71-85 12-26 (184)
354 PRK11608 pspF phage shock prot 51.6 12 0.00026 26.9 1.9 18 68-85 28-45 (326)
355 PF04665 Pox_A32: Poxvirus A32 51.2 8.3 0.00018 26.9 1.1 14 73-86 17-30 (241)
356 KOG0925|consensus 51.1 10 0.00023 29.6 1.7 20 67-86 60-79 (699)
357 PRK10919 ATP-dependent DNA hel 51.0 7 0.00015 31.0 0.8 15 72-86 18-32 (672)
358 TIGR02239 recomb_RAD51 DNA rep 51.0 22 0.00047 25.6 3.2 30 57-86 81-113 (316)
359 TIGR01243 CDC48 AAA family ATP 50.9 8.2 0.00018 30.8 1.1 17 70-86 213-229 (733)
360 TIGR03265 PhnT2 putative 2-ami 50.9 7.4 0.00016 28.4 0.8 14 73-86 34-47 (353)
361 cd03242 ABC_RecF RecF is a rec 50.9 6.1 0.00013 27.4 0.4 13 74-86 26-38 (270)
362 PRK10751 molybdopterin-guanine 50.7 9.8 0.00021 25.1 1.3 11 75-85 12-22 (173)
363 TIGR02785 addA_Gpos recombinat 50.6 6.8 0.00015 33.3 0.7 19 69-87 14-32 (1232)
364 PRK05973 replicative DNA helic 50.5 13 0.00029 25.7 2.0 24 62-85 55-80 (237)
365 TIGR01054 rgy reverse gyrase. 50.4 15 0.00033 31.2 2.6 24 60-85 86-109 (1171)
366 cd00984 DnaB_C DnaB helicase C 50.4 15 0.00032 24.6 2.2 25 62-86 4-30 (242)
367 TIGR00602 rad24 checkpoint pro 50.4 13 0.00028 29.6 2.1 16 71-86 112-127 (637)
368 PRK11054 helD DNA helicase IV; 50.3 6.7 0.00015 31.3 0.6 17 72-88 212-228 (684)
369 COG1643 HrpA HrpA-like helicas 50.1 16 0.00034 30.1 2.6 21 63-84 60-80 (845)
370 KOG1970|consensus 50.1 23 0.0005 28.0 3.4 38 48-86 82-127 (634)
371 PF13481 AAA_25: AAA domain; P 50.1 7.7 0.00017 25.0 0.8 27 60-86 20-49 (193)
372 PLN02200 adenylate kinase fami 49.8 9.9 0.00021 26.1 1.3 16 69-84 43-58 (234)
373 COG4555 NatA ABC-type Na+ tran 49.7 6.1 0.00013 27.5 0.2 12 75-86 34-45 (245)
374 CHL00195 ycf46 Ycf46; Provisio 49.5 6.6 0.00014 30.1 0.4 17 70-86 260-276 (489)
375 PF11406 Tachystatin_A: Antimi 49.5 3.7 8E-05 20.4 -0.6 15 64-78 5-19 (44)
376 PRK12727 flagellar biosynthesi 49.3 6.9 0.00015 30.6 0.5 16 71-86 352-367 (559)
377 PRK06851 hypothetical protein; 49.1 10 0.00023 28.0 1.4 26 61-86 22-47 (367)
378 cd03238 ABC_UvrA The excision 49.1 6.3 0.00014 25.9 0.2 14 73-86 25-38 (176)
379 PRK13830 conjugal transfer pro 49.1 6.8 0.00015 31.8 0.5 18 69-86 456-473 (818)
380 PRK13853 type IV secretion sys 49.1 7.5 0.00016 31.4 0.7 16 71-86 428-443 (789)
381 cd04114 Rab30 Rab30 subfamily. 48.9 12 0.00026 23.2 1.5 18 69-86 7-24 (169)
382 PLN03137 ATP-dependent DNA hel 48.9 17 0.00036 31.1 2.6 25 59-85 467-491 (1195)
383 TIGR01447 recD exodeoxyribonuc 48.6 6.6 0.00014 30.8 0.3 15 72-86 163-177 (586)
384 KOG1532|consensus 48.4 13 0.00029 27.0 1.8 20 67-86 17-36 (366)
385 TIGR02397 dnaX_nterm DNA polym 48.3 20 0.00044 25.4 2.7 36 47-86 17-53 (355)
386 PRK05416 glmZ(sRNA)-inactivati 48.2 6.5 0.00014 28.0 0.2 16 71-86 8-23 (288)
387 PRK11607 potG putrescine trans 48.1 8.7 0.00019 28.3 0.9 15 72-86 48-62 (377)
388 PRK05986 cob(I)alamin adenolsy 48.1 5.9 0.00013 26.7 -0.0 20 69-88 22-41 (191)
389 PRK02362 ski2-like helicase; P 48.0 16 0.00034 29.2 2.3 20 64-85 36-55 (737)
390 COG4525 TauB ABC-type taurine 48.0 11 0.00024 26.2 1.3 16 71-86 33-48 (259)
391 COG0444 DppD ABC-type dipeptid 47.8 5.1 0.00011 29.1 -0.4 12 75-86 37-48 (316)
392 TIGR01613 primase_Cterm phage/ 47.8 10 0.00022 26.8 1.1 18 68-85 75-92 (304)
393 cd03273 ABC_SMC2_euk Eukaryoti 47.7 11 0.00024 25.8 1.2 13 74-86 30-42 (251)
394 cd04155 Arl3 Arl3 subfamily. 47.7 10 0.00022 23.7 1.0 18 69-86 14-31 (173)
395 PTZ00133 ADP-ribosylation fact 47.5 19 0.00041 23.2 2.3 24 63-86 11-34 (182)
396 KOG2035|consensus 47.4 22 0.00047 26.0 2.7 34 52-85 16-50 (351)
397 TIGR03598 GTPase_YsxC ribosome 47.4 7.1 0.00015 25.0 0.3 18 69-86 18-35 (179)
398 PRK14962 DNA polymerase III su 47.3 19 0.0004 27.5 2.5 23 64-86 30-53 (472)
399 COG0610 Type I site-specific r 47.0 4.8 0.0001 33.3 -0.7 14 74-87 278-291 (962)
400 PRK05022 anaerobic nitric oxid 47.0 17 0.00037 27.8 2.3 42 38-85 185-226 (509)
401 PRK09452 potA putrescine/sperm 46.7 9.4 0.0002 28.1 0.8 14 73-86 44-57 (375)
402 COG1100 GTPase SAR1 and relate 46.7 10 0.00022 24.8 0.9 17 70-86 6-22 (219)
403 TIGR00382 clpX endopeptidase C 46.7 9.9 0.00021 28.6 1.0 17 70-86 117-133 (413)
404 PRK10876 recB exonuclease V su 46.7 4.7 0.0001 34.1 -0.8 13 75-87 23-35 (1181)
405 cd03272 ABC_SMC3_euk Eukaryoti 46.7 7.7 0.00017 26.2 0.4 13 74-86 28-40 (243)
406 PLN03186 DNA repair protein RA 46.5 26 0.00057 25.6 3.1 30 57-86 108-140 (342)
407 PRK07667 uridine kinase; Provi 46.4 14 0.00031 24.2 1.6 18 67-84 15-32 (193)
408 TIGR00609 recB exodeoxyribonuc 46.4 6.6 0.00014 32.9 -0.0 14 74-87 14-27 (1087)
409 PLN02165 adenylate isopentenyl 46.4 11 0.00024 27.6 1.2 16 71-86 45-60 (334)
410 TIGR02759 TraD_Ftype type IV c 46.3 7.4 0.00016 30.4 0.2 16 71-86 178-193 (566)
411 cd03239 ABC_SMC_head The struc 46.2 10 0.00022 24.8 0.8 14 73-86 26-39 (178)
412 COG3596 Predicted GTPase [Gene 46.1 18 0.00039 26.0 2.1 23 64-86 34-56 (296)
413 PRK14701 reverse gyrase; Provi 45.8 21 0.00046 31.5 2.8 24 59-84 86-109 (1638)
414 TIGR03689 pup_AAA proteasome A 45.4 9.7 0.00021 29.4 0.8 16 71-86 218-233 (512)
415 cd03275 ABC_SMC1_euk Eukaryoti 45.3 12 0.00025 25.6 1.1 15 72-86 25-39 (247)
416 PLN02748 tRNA dimethylallyltra 45.1 14 0.0003 28.3 1.5 18 67-84 20-37 (468)
417 COG1222 RPT1 ATP-dependent 26S 45.1 11 0.00023 28.3 0.9 35 49-83 160-199 (406)
418 PF08423 Rad51: Rad51; InterP 44.9 8.3 0.00018 26.8 0.3 29 57-85 23-54 (256)
419 KOG0162|consensus 44.5 29 0.00063 28.6 3.2 34 50-84 85-119 (1106)
420 PF13337 Lon_2: Putative ATP-d 44.5 29 0.00063 26.6 3.1 18 69-86 208-225 (457)
421 KOG0344|consensus 44.3 17 0.00037 28.6 1.9 25 59-85 165-189 (593)
422 PRK11034 clpA ATP-dependent Cl 44.3 18 0.00039 29.4 2.1 17 72-88 210-226 (758)
423 cd03278 ABC_SMC_barmotin Barmo 44.3 12 0.00026 24.8 1.0 13 74-86 27-39 (197)
424 KOG1800|consensus 44.3 22 0.00047 27.0 2.4 21 60-80 101-121 (468)
425 cd03243 ABC_MutS_homologs The 44.1 10 0.00022 25.0 0.6 16 71-86 31-46 (202)
426 PRK13880 conjugal transfer cou 44.1 16 0.00036 28.9 1.8 19 69-87 175-193 (636)
427 cd03218 ABC_YhbG The ABC trans 44.1 14 0.0003 24.7 1.3 15 72-86 29-43 (232)
428 PRK14738 gmk guanylate kinase; 43.9 17 0.00037 24.2 1.7 18 69-86 13-30 (206)
429 cd03293 ABC_NrtD_SsuB_transpor 43.8 9.5 0.00021 25.4 0.5 14 73-86 34-47 (220)
430 cd01918 HprK_C HprK/P, the bif 43.6 18 0.00038 23.4 1.6 17 69-85 14-30 (149)
431 PRK11823 DNA repair protein Ra 43.5 26 0.00057 26.4 2.8 30 57-86 65-97 (446)
432 cd01919 PEPCK Phosphoenolpyruv 43.5 16 0.00034 28.4 1.6 17 71-87 219-235 (515)
433 PF02702 KdpD: Osmosensitive K 43.5 7.8 0.00017 26.6 0.0 16 72-87 8-23 (211)
434 KOG1384|consensus 43.4 15 0.00033 27.0 1.5 15 70-84 8-22 (348)
435 COG4152 ABC-type uncharacteriz 43.3 9.8 0.00021 27.2 0.5 12 75-86 34-45 (300)
436 cd03297 ABC_ModC_molybdenum_tr 43.3 14 0.0003 24.5 1.2 17 70-86 24-40 (214)
437 cd03265 ABC_DrrA DrrA is the A 43.2 9.9 0.00021 25.3 0.5 15 72-86 29-43 (220)
438 COG0572 Udk Uridine kinase [Nu 43.1 8.8 0.00019 26.4 0.2 10 75-84 14-23 (218)
439 cd03258 ABC_MetN_methionine_tr 42.9 10 0.00022 25.4 0.5 15 72-86 34-48 (233)
440 COG0410 LivF ABC-type branched 42.8 10 0.00022 26.5 0.5 15 72-86 32-46 (237)
441 cd03270 ABC_UvrA_I The excisio 42.8 14 0.0003 24.9 1.2 16 71-86 23-38 (226)
442 cd03226 ABC_cobalt_CbiO_domain 42.7 10 0.00022 24.9 0.5 15 72-86 29-43 (205)
443 PRK15455 PrkA family serine pr 42.6 55 0.0012 26.2 4.4 41 43-83 75-117 (644)
444 TIGR00750 lao LAO/AO transport 42.6 20 0.00042 25.4 1.9 28 59-86 22-51 (300)
445 cd03271 ABC_UvrA_II The excisi 42.6 16 0.00034 25.7 1.4 15 72-86 24-38 (261)
446 TIGR03345 VI_ClpV1 type VI sec 42.5 31 0.00067 28.4 3.2 30 55-84 576-611 (852)
447 TIGR00073 hypB hydrogenase acc 42.5 10 0.00022 25.1 0.4 15 72-86 25-39 (207)
448 cd03292 ABC_FtsE_transporter F 42.5 15 0.00032 24.2 1.2 14 73-86 31-44 (214)
449 PRK00254 ski2-like helicase; P 42.3 21 0.00046 28.4 2.3 20 64-85 36-55 (720)
450 TIGR01166 cbiO cobalt transpor 42.3 10 0.00022 24.6 0.4 14 73-86 22-35 (190)
451 cd03255 ABC_MJ0796_Lo1CDE_FtsE 42.3 15 0.00032 24.3 1.2 15 72-86 33-47 (218)
452 PRK14712 conjugal transfer nic 42.2 18 0.00038 32.0 1.8 28 59-86 842-869 (1623)
453 TIGR03608 L_ocin_972_ABC putat 42.0 11 0.00023 24.8 0.5 15 72-86 27-41 (206)
454 PRK04220 2-phosphoglycerate ki 41.9 31 0.00068 24.9 2.9 18 67-84 90-107 (301)
455 PF00519 PPV_E1_C: Papillomavi 41.7 17 0.00036 27.6 1.5 24 62-85 253-278 (432)
456 cd03264 ABC_drug_resistance_li 41.7 6.5 0.00014 25.9 -0.6 15 72-86 28-42 (211)
457 TIGR02621 cas3_GSU0051 CRISPR- 41.6 26 0.00057 28.9 2.7 25 60-85 23-47 (844)
458 PRK11432 fbpC ferric transport 41.6 13 0.00028 27.1 0.9 13 74-86 37-49 (351)
459 smart00178 SAR Sar1p-like memb 41.4 34 0.00073 22.0 2.8 20 67-86 15-34 (184)
460 TIGR01188 drrA daunorubicin re 41.4 11 0.00023 26.6 0.5 13 74-86 24-36 (302)
461 TIGR01663 PNK-3'Pase polynucle 41.2 18 0.0004 28.1 1.7 20 66-85 366-385 (526)
462 cd03225 ABC_cobalt_CbiO_domain 41.2 11 0.00024 24.8 0.5 14 73-86 31-44 (211)
463 cd04110 Rab35 Rab35 subfamily. 41.2 14 0.00031 24.1 1.0 16 71-86 8-23 (199)
464 cd01121 Sms Sms (bacterial rad 41.2 21 0.00045 26.4 1.9 29 58-86 68-99 (372)
465 PRK10851 sulfate/thiosulfate t 41.1 14 0.00031 26.9 1.1 14 73-86 32-45 (353)
466 cd03269 ABC_putative_ATPase Th 41.1 11 0.00024 24.8 0.5 15 72-86 29-43 (210)
467 cd03241 ABC_RecN RecN ATPase i 41.0 11 0.00024 26.3 0.5 13 74-86 26-38 (276)
468 TIGR02673 FtsE cell division A 41.0 16 0.00035 24.1 1.2 15 72-86 31-45 (214)
469 cd03219 ABC_Mj1267_LivG_branch 40.9 16 0.00035 24.5 1.2 15 72-86 29-43 (236)
470 cd04116 Rab9 Rab9 subfamily. 40.8 15 0.00032 22.9 1.0 17 70-86 6-22 (170)
471 TIGR01288 nodI ATP-binding ABC 40.7 11 0.00024 26.5 0.5 14 73-86 34-47 (303)
472 KOG0729|consensus 40.7 16 0.00035 26.6 1.3 14 71-84 213-226 (435)
473 cd03276 ABC_SMC6_euk Eukaryoti 40.7 11 0.00025 24.9 0.4 13 74-86 26-38 (198)
474 KOG0635|consensus 40.6 30 0.00064 23.1 2.4 21 63-83 25-45 (207)
475 PRK13826 Dtr system oriT relax 40.6 21 0.00045 30.3 2.0 26 61-87 390-415 (1102)
476 COG4938 Uncharacterized conser 40.5 11 0.00024 27.5 0.4 18 69-87 22-39 (374)
477 KOG2721|consensus 40.5 53 0.0012 22.9 3.6 42 38-79 29-70 (260)
478 cd03262 ABC_HisP_GlnQ_permease 40.5 17 0.00036 23.9 1.2 15 72-86 29-43 (213)
479 PRK05537 bifunctional sulfate 40.4 25 0.00055 27.5 2.3 16 69-84 392-407 (568)
480 TIGR00708 cobA cob(I)alamin ad 40.3 11 0.00025 24.9 0.4 20 69-88 5-24 (173)
481 KOG0164|consensus 40.3 23 0.00049 29.0 2.1 20 66-85 91-110 (1001)
482 cd03301 ABC_MalK_N The N-termi 40.3 17 0.00036 23.9 1.2 15 72-86 29-43 (213)
483 COG0419 SbcC ATPase involved i 40.2 16 0.00034 30.0 1.3 13 72-84 28-40 (908)
484 TIGR00763 lon ATP-dependent pr 40.2 44 0.00096 27.0 3.7 16 71-86 349-364 (775)
485 CHL00176 ftsH cell division pr 40.2 13 0.00029 29.5 0.8 16 71-86 218-233 (638)
486 cd03256 ABC_PhnC_transporter A 40.1 12 0.00025 25.2 0.5 14 73-86 31-44 (241)
487 PRK13898 type IV secretion sys 40.0 11 0.00025 30.4 0.4 17 70-86 447-463 (800)
488 COG0529 CysC Adenylylsulfate k 40.0 25 0.00054 23.9 2.0 22 63-84 16-38 (197)
489 PRK10869 recombination and rep 40.0 18 0.0004 28.1 1.5 10 75-84 28-37 (553)
490 cd03261 ABC_Org_Solvent_Resist 40.0 12 0.00026 25.2 0.5 14 73-86 30-43 (235)
491 TIGR00150 HI0065_YjeE ATPase, 40.0 17 0.00038 22.9 1.2 16 71-86 24-39 (133)
492 TIGR01650 PD_CobS cobaltochela 40.0 37 0.00081 24.8 3.0 25 60-86 57-81 (327)
493 KOG0331|consensus 39.9 19 0.00042 28.0 1.6 24 60-85 121-144 (519)
494 TIGR01243 CDC48 AAA family ATP 39.9 15 0.00032 29.4 1.0 16 71-86 489-504 (733)
495 KOG0346|consensus 39.8 17 0.00037 28.1 1.3 23 60-84 49-71 (569)
496 TIGR03522 GldA_ABC_ATP gliding 39.8 13 0.00029 26.2 0.7 15 72-86 31-45 (301)
497 PRK11034 clpA ATP-dependent Cl 39.7 45 0.00098 27.1 3.7 16 70-85 489-504 (758)
498 cd04154 Arl2 Arl2 subfamily. 39.7 16 0.00035 23.0 1.0 18 69-86 14-31 (173)
499 COG3854 SpoIIIAA ncharacterize 39.4 31 0.00068 24.6 2.5 35 51-86 120-154 (308)
500 cd04153 Arl5_Arl8 Arl5/Arl8 su 39.4 31 0.00067 21.8 2.4 17 70-86 16-32 (174)
No 1
>cd01370 KISc_KIP3_like Kinesin motor domain, KIP3-like subgroup. The yeast kinesin KIP3 plays a role in positioning the mitotic spindle. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a sec
Probab=99.96 E-value=1.6e-29 Score=180.72 Aligned_cols=95 Identities=36% Similarity=0.498 Sum_probs=81.8
Q ss_pred CEEecCCCchhhhcCCceEEEEcCCCCeEE---------------eCCCeeeeccEEecCCCcHHHHHHHHHHHHHHHHh
Q psy15017 1 MCKIRPQSAREVIDMCRVCTFVTPGEPQVT---------------LGADKSFTFDYVFDMADVQTTIYELCAASLVAGSL 65 (97)
Q Consensus 1 ~vRvRP~~~~e~~~~~~~~~~~~~~~~~~~---------------~~~~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~ 65 (97)
+|||||++.+|..++...++.+.+++..+. ...++.|.||+||+++++|++||+.++.|+|+.++
T Consensus 5 ~vRvRP~~~~E~~~~~~~~v~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~f~Fd~vf~~~~~q~~vf~~~~~plv~~~~ 84 (338)
T cd01370 5 AVRVRPFNEKEKQEGTRRVVKVVDDRMLVFDPKDEEDAFRNLRARRNKELKYSFDRVFDETSTQEEVYENTTKPLVDGVL 84 (338)
T ss_pred EEEcCCCChhhhhcCCceEEEEcCCCEEEEcCCcccccccchhcccCCceEEEeccccCCCCCHHHHHHHHHHHHHHHHH
Confidence 699999999998888888887765432221 11358899999999999999999999999999999
Q ss_pred CCCCEEEEeeccCCCccceeecCCCCCCCC
Q psy15017 66 EGYNATILAYGQTGSGKTYTMGTGTFSPIS 95 (97)
Q Consensus 66 ~g~n~~v~ayG~t~sGKt~T~~G~~~~~~~ 95 (97)
+|+|+||||||+|||||||||+|+.++|+.
T Consensus 85 ~G~n~~i~ayGqtGSGKTyTm~G~~~~~Gi 114 (338)
T cd01370 85 NGYNATVFAYGATGAGKTHTMLGTDSDPGL 114 (338)
T ss_pred CCCCceEEeeCCCCCCCeEEEcCCCCCCch
Confidence 999999999999999999999999887754
No 2
>cd01373 KISc_KLP2_like Kinesin motor domain, KLP2-like subgroup. Members of this subgroup seem to play a role in mitosis and meiosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second
Probab=99.96 E-value=6.3e-29 Score=177.57 Aligned_cols=92 Identities=37% Similarity=0.501 Sum_probs=79.4
Q ss_pred CEEecCCCchhhhcCCceEEEEcCCCCeEEeC-CCeeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCC
Q psy15017 1 MCKIRPQSAREVIDMCRVCTFVTPGEPQVTLG-ADKSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATILAYGQTG 79 (97)
Q Consensus 1 ~vRvRP~~~~e~~~~~~~~~~~~~~~~~~~~~-~~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~ 79 (97)
+|||||++..|.......++...+.+..+... +++.|.||+|||++++|++||+.++.|+|+.+++|+|+||||||+||
T Consensus 6 ~vRvRP~~~~e~~~~~~~~v~~~~~~~~~~~~~~~~~f~FD~vf~~~~~q~~vy~~~~~p~v~~~~~G~n~ti~aYGqTG 85 (337)
T cd01373 6 VVRIRPPNEIEADGGQGQCLKKLSSDTLVWHSHPPRMFTFDHVADSNTNQEDVFQSVGKPLVEDCLSGYNGSIFAYGQTG 85 (337)
T ss_pred EEEcCcCChhhcccCCCeEEEEcCCCcEEeeCCCCcEEeCCeEeCCCCCHHHHHHHHHHHHHHHHhCCCceeEEEeCCCC
Confidence 59999999999766666777665544443332 36899999999999999999999999999999999999999999999
Q ss_pred CccceeecCCCCC
Q psy15017 80 SGKTYTMGTGTFS 92 (97)
Q Consensus 80 sGKt~T~~G~~~~ 92 (97)
|||||||+|+...
T Consensus 86 SGKTyTm~G~~~~ 98 (337)
T cd01373 86 SGKTYTMMGPSSS 98 (337)
T ss_pred CCceEEecCCCCc
Confidence 9999999998764
No 3
>cd01368 KISc_KIF23_like Kinesin motor domain, KIF23-like subgroup. Members of this group may play a role in mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second tubulin dimer, a
Probab=99.96 E-value=6e-29 Score=178.18 Aligned_cols=94 Identities=31% Similarity=0.406 Sum_probs=80.5
Q ss_pred CEEecCCCchhhhcCCceEEEEcCCCCeEEeC----------------CCeeeeccEEecCCCcHHHHHHHHHHHHHHHH
Q psy15017 1 MCKIRPQSAREVIDMCRVCTFVTPGEPQVTLG----------------ADKSFTFDYVFDMADVQTTIYELCAASLVAGS 64 (97)
Q Consensus 1 ~vRvRP~~~~e~~~~~~~~~~~~~~~~~~~~~----------------~~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~ 64 (97)
+|||||++..|.......++.+.+++ .+.+. .++.|.||+||+++++|++||+.++.|+|+.+
T Consensus 6 ~vRvRP~~~~E~~~~~~~~v~~~~~~-~v~~~~~~~~~~~~~~~~~~~~~~~f~Fd~vf~~~~tq~~vy~~~~~p~v~~~ 84 (345)
T cd01368 6 YLRVRPLSKDELESEDEGCIEVINST-TIQLHPPKGSAARKSERNGGQKETKFSFSKVFGPNTTQKEFFEGTALPLVQDL 84 (345)
T ss_pred EEEeCcCCchhhccCCCceEEEcCCC-EEEEeCCccccccccccccCCCceEeecCeEECCCCCHHHHHHHHHHHHHHHH
Confidence 69999999999766667777664433 33321 36789999999999999999999999999999
Q ss_pred hCCCCEEEEeeccCCCccceeecCCCCCCCC
Q psy15017 65 LEGYNATILAYGQTGSGKTYTMGTGTFSPIS 95 (97)
Q Consensus 65 ~~g~n~~v~ayG~t~sGKt~T~~G~~~~~~~ 95 (97)
++|+|+||||||+|||||||||+|+.++++.
T Consensus 85 l~G~n~ti~aYGqtGSGKTyTm~G~~~~~Gl 115 (345)
T cd01368 85 LKGKNSLLFTYGVTNSGKTYTMQGSPGDGGI 115 (345)
T ss_pred hCCCceEEEEeCCCCCCCeEEecCCCCCCch
Confidence 9999999999999999999999999987764
No 4
>cd01367 KISc_KIF2_like Kinesin motor domain, KIF2-like group. KIF2 is a protein expressed in neurons, which has been associated with axonal transport and neuron development; alternative splice forms have been implicated in lysosomal translocation. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this subgroup the motor domain is found in the middle (M-type) of the protein chain. M-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second (KIF2 may be slower). To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and lo
Probab=99.96 E-value=9.1e-29 Score=175.82 Aligned_cols=94 Identities=35% Similarity=0.462 Sum_probs=80.2
Q ss_pred CEEecCCCchhhhcCCceEEEEcCCCCeEEeC------------CCeeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCC
Q psy15017 1 MCKIRPQSAREVIDMCRVCTFVTPGEPQVTLG------------ADKSFTFDYVFDMADVQTTIYELCAASLVAGSLEGY 68 (97)
Q Consensus 1 ~vRvRP~~~~e~~~~~~~~~~~~~~~~~~~~~------------~~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~ 68 (97)
+|||||++..|...+...++.+... .++.+. +.++|.||+||+++++|+++|+.++.|+|+.+++|+
T Consensus 6 ~vRvRP~~~~e~~~~~~~~~~~~~~-~~v~~~~~~~~~~~~~~~~~~~f~FD~vf~~~~~q~~vf~~~~~plv~~~~~G~ 84 (322)
T cd01367 6 AVRKRPLNDKELSKGETDVVSCESN-PTVTVHEPKTKVDLTKYIEKHTFRFDYVFDEAVTNEEVYRSTVKPLIPHVFEGG 84 (322)
T ss_pred EEEcCcCChhhhccCCceEEEECCC-CEEEEecCccccccccccCCceEecceEECCCCCHHHHHHHHHHHHHHHHhCCC
Confidence 5999999999986666666665443 333332 257999999999999999999999999999999999
Q ss_pred CEEEEeeccCCCccceeecCCCCCCCC
Q psy15017 69 NATILAYGQTGSGKTYTMGTGTFSPIS 95 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~T~~G~~~~~~~ 95 (97)
|+||||||+|||||||||+|+.++++.
T Consensus 85 n~~i~ayGqtGSGKTyTm~G~~~~~Gl 111 (322)
T cd01367 85 VATCFAYGQTGSGKTYTMLGDENQEGL 111 (322)
T ss_pred ceEEEeccCCCCCCceEecCcCCcCcc
Confidence 999999999999999999999887764
No 5
>cd01372 KISc_KIF4 Kinesin motor domain, KIF4-like subfamily. Members of this group seem to perform a variety of functions, and have been implicated in neuronal organelle transport and chromosome segregation during mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain,
Probab=99.96 E-value=1.2e-28 Score=176.07 Aligned_cols=91 Identities=60% Similarity=1.044 Sum_probs=85.5
Q ss_pred CEEecCCCchhhhcCCceEEEEcCCCCeEEeCCCeeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCC
Q psy15017 1 MCKIRPQSAREVIDMCRVCTFVTPGEPQVTLGADKSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATILAYGQTGS 80 (97)
Q Consensus 1 ~vRvRP~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~s 80 (97)
+||+||+...|..++...++.+.+.++++.+...+.|.||+|||++++|+++|+.++.|+|+.+++|+|+||||||++||
T Consensus 6 ~vRvRP~~~~e~~~~~~~~~~~~~~~~~v~~~~~~~f~FD~vf~~~~~q~~vy~~~~~plv~~~~~G~n~~i~ayG~tgS 85 (341)
T cd01372 6 AVRVRPLLPKELLEGCQVCVSVVPGEPQVTVGTDKSFTFDYVFDPSTSQEEVYNTCVAPLVDGLFEGYNATVLAYGQTGS 85 (341)
T ss_pred EEECCCCCchhcccCCCeEEEEeCCCCEEEecCCcEEeccccCCCCCCHHHHHHHHHHHHHHHHhCCCccceeeecCCCC
Confidence 58999999999888888888888888888888899999999999999999999999999999999999999999999999
Q ss_pred ccceeecCCCC
Q psy15017 81 GKTYTMGTGTF 91 (97)
Q Consensus 81 GKt~T~~G~~~ 91 (97)
||||||+|+..
T Consensus 86 GKT~Tm~G~~~ 96 (341)
T cd01372 86 GKTYTMGTAFT 96 (341)
T ss_pred CCcEEecCCCc
Confidence 99999999864
No 6
>KOG0243|consensus
Probab=99.96 E-value=1.1e-28 Score=191.92 Aligned_cols=91 Identities=40% Similarity=0.625 Sum_probs=80.1
Q ss_pred CEEecCCCchhhhcCCceEEEEcCCCCeEEeC-------CCeeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEE
Q psy15017 1 MCKIRPQSAREVIDMCRVCTFVTPGEPQVTLG-------ADKSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATIL 73 (97)
Q Consensus 1 ~vRvRP~~~~e~~~~~~~~~~~~~~~~~~~~~-------~~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ 73 (97)
+|||||++.+|.......++.+++...-+.+. -.++|+||+||++.+.|.++|+..+.|+|..++.||||+||
T Consensus 54 ivRcRp~n~~E~~~~s~~VVs~~~~~kEV~v~~~~~sk~~~k~ftFDkVFGpes~Q~d~Y~~~v~p~i~eVl~GyNCTIF 133 (1041)
T KOG0243|consen 54 IVRCRPRNDRERKSKSSVVVSCDGIRKEVAVRQTIASKQIDKTFTFDKVFGPESQQEDLYDQAVSPIIKEVLEGYNCTIF 133 (1041)
T ss_pred EEEeCCCCchhhhcCCCeEEecCCCcceEEEecccccccccceeecceeeCcchhHHHHHHHHHHHHHHHHhccCCceEE
Confidence 59999999999988888888887644434432 25889999999999999999999999999999999999999
Q ss_pred eeccCCCccceeecCCCC
Q psy15017 74 AYGQTGSGKTYTMGTGTF 91 (97)
Q Consensus 74 ayG~t~sGKt~T~~G~~~ 91 (97)
||||||+||||||.|+..
T Consensus 134 AYGQTGTGKTyTMeG~~~ 151 (1041)
T KOG0243|consen 134 AYGQTGTGKTYTMEGGER 151 (1041)
T ss_pred EecCCCCCceeeeecCcc
Confidence 999999999999999543
No 7
>cd01365 KISc_KIF1A_KIF1B Kinesin motor domain, KIF1_like proteins. KIF1A (Unc104) transports synaptic vesicles to the nerve terminal, KIF1B has been implicated in transport of mitochondria. Both proteins are expressed in neurons. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. In contrast to the majority of dimeric kinesins, most KIF1A/Unc104 kinesins are monomeric motors. A lysine-rich loop in KIF1A binds to the negatively charged C-terminus of tubulin and compensates for the lack of a second motor domain, allowing KIF1A to move processively.
Probab=99.95 E-value=2.5e-28 Score=175.51 Aligned_cols=95 Identities=29% Similarity=0.381 Sum_probs=80.8
Q ss_pred CEEecCCCchhhhcCCceEEEEcCCCCeEEeC--------CCeeeeccEEecCC-------CcHHHHHHHHHHHHHHHHh
Q psy15017 1 MCKIRPQSAREVIDMCRVCTFVTPGEPQVTLG--------ADKSFTFDYVFDMA-------DVQTTIYELCAASLVAGSL 65 (97)
Q Consensus 1 ~vRvRP~~~~e~~~~~~~~~~~~~~~~~~~~~--------~~~~F~fd~vf~~~-------~~q~~v~~~~~~p~v~~~~ 65 (97)
+||+||++..|...+...++.+.+....+... ..++|.||+|||+. ++|+++|+.++.|+++.++
T Consensus 6 ~vRvRP~~~~E~~~~~~~~~~~~~~~v~v~~~~~~~~~~~~~~~f~FD~vf~~~~~~~~~~~tq~~vf~~~~~p~v~~~l 85 (356)
T cd01365 6 AVRVRPFNSREKNRGSKCIVQMPGKVTTLKNPKAADATRKKPKSFSFDHSYWSHDSEDPHYASQEDVFEDLGRELLDHAF 85 (356)
T ss_pred EEEeCcCChhhhccCCceEEEECCCEEEEEcCCcccccccCceEEECCeEecccCCCCCCCCCHHHHHHHHHHHHHHHHh
Confidence 59999999999888877777776522222211 35789999999999 9999999999999999999
Q ss_pred CCCCEEEEeeccCCCccceeecCCCCCCCC
Q psy15017 66 EGYNATILAYGQTGSGKTYTMGTGTFSPIS 95 (97)
Q Consensus 66 ~g~n~~v~ayG~t~sGKt~T~~G~~~~~~~ 95 (97)
+|+|+||||||+|||||||||+|+...++.
T Consensus 86 ~G~n~~i~ayGqtGSGKT~Tm~G~~~~~Gl 115 (356)
T cd01365 86 EGYNVCLFAYGQTGSGKSYTMMGYKEEKGI 115 (356)
T ss_pred CCCceEEEEecCCCCCCeEEecCCCCCCch
Confidence 999999999999999999999999886653
No 8
>cd01371 KISc_KIF3 Kinesin motor domain, kinesins II or KIF3_like proteins. Subgroup of kinesins, which form heterotrimers composed of 2 kinesins and one non-motor accessory subunit. Kinesins II play important roles in ciliary transport, and have been implicated in neuronal transport, melanosome transport, the secretory pathway, and mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this group the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain
Probab=99.95 E-value=5.7e-28 Score=172.35 Aligned_cols=91 Identities=42% Similarity=0.559 Sum_probs=82.4
Q ss_pred CEEecCCCchhhhcCCceEEEEcCCCCeEEeC--------CCeeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEE
Q psy15017 1 MCKIRPQSAREVIDMCRVCTFVTPGEPQVTLG--------ADKSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATI 72 (97)
Q Consensus 1 ~vRvRP~~~~e~~~~~~~~~~~~~~~~~~~~~--------~~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v 72 (97)
+|||||++..|.......++.+++.+.++.+. ..+.|.||+||+++++|+++|+.++.|+|+.+++|+|+||
T Consensus 6 ~vRvRP~~~~e~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~f~fd~vf~~~~~q~~vy~~~~~plv~~~~~G~n~~i 85 (333)
T cd01371 6 VVRCRPLNKREKSEGAPEIVGVDENRGQVTVHNPKADAKEPPKVFTFDAVYDPNSTQEDVYNETARPLVDSVLEGYNGTI 85 (333)
T ss_pred EEEcCcCChhhhhcCCCeEEEEcCCCCEEEEeCCcccccCCCceeeeccccCCCccHHHHHHHHHHHHHHHHhCCCceeE
Confidence 59999999999888878888887777766653 3578999999999999999999999999999999999999
Q ss_pred EeeccCCCccceeecCCCC
Q psy15017 73 LAYGQTGSGKTYTMGTGTF 91 (97)
Q Consensus 73 ~ayG~t~sGKt~T~~G~~~ 91 (97)
||||++||||||||+|+..
T Consensus 86 ~ayG~tgSGKTyTm~G~~~ 104 (333)
T cd01371 86 FAYGQTGTGKTFTMEGVRE 104 (333)
T ss_pred EecCCCCCCCcEeecCCCC
Confidence 9999999999999999876
No 9
>KOG4280|consensus
Probab=99.95 E-value=3.4e-28 Score=181.73 Aligned_cols=90 Identities=47% Similarity=0.687 Sum_probs=82.0
Q ss_pred CEEecCCCchhhhcCCceEEEEcCCCCeEEeC--------CCeeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEE
Q psy15017 1 MCKIRPQSAREVIDMCRVCTFVTPGEPQVTLG--------ADKSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATI 72 (97)
Q Consensus 1 ~vRvRP~~~~e~~~~~~~~~~~~~~~~~~~~~--------~~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v 72 (97)
+||+||++..+..+....++.+++....+.+. .+++|+||.||+++++|++||+.++.|+|+.+++|||+||
T Consensus 10 vvr~rPl~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ftfD~vf~~~stQ~dvy~~~~~~lV~svl~GyNgtv 89 (574)
T KOG4280|consen 10 VVRVRPLSAAERSELLKSILSVDPAHGRVSLKNPVAGIEGKPKSFTFDAVFDSDSTQDDVYQETVAPLVESVLEGYNGTV 89 (574)
T ss_pred EEeecCCCchhhhhhhccccccccccceeeecCCcccccCCCCCceeeeeecCCCCHHHHHHHHhHHHHHHHhcccCceE
Confidence 68999999999988888888887766666553 3678999999999999999999999999999999999999
Q ss_pred EeeccCCCccceeecCCC
Q psy15017 73 LAYGQTGSGKTYTMGTGT 90 (97)
Q Consensus 73 ~ayG~t~sGKt~T~~G~~ 90 (97)
||||||||||||||.|+.
T Consensus 90 FaYGQTGsGKTyTM~G~~ 107 (574)
T KOG4280|consen 90 FAYGQTGSGKTYTMIGPD 107 (574)
T ss_pred EEeccCCCCCceEeeCCC
Confidence 999999999999999994
No 10
>cd01369 KISc_KHC_KIF5 Kinesin motor domain, kinesin heavy chain (KHC) or KIF5-like subgroup. Members of this group have been associated with organelle transport. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-c
Probab=99.95 E-value=1.8e-27 Score=169.14 Aligned_cols=90 Identities=38% Similarity=0.628 Sum_probs=80.7
Q ss_pred CEEecCCCchhhhcCCceEEEEcCCCCeEEeC---CCeeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEeecc
Q psy15017 1 MCKIRPQSAREVIDMCRVCTFVTPGEPQVTLG---ADKSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATILAYGQ 77 (97)
Q Consensus 1 ~vRvRP~~~~e~~~~~~~~~~~~~~~~~~~~~---~~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~ 77 (97)
+|||||++..|...+...++.+.++ .++.+. ..+.|.||+|||++++|+++|+.++.|+|+.+++|+|+||||||+
T Consensus 7 ~vRvRP~~~~e~~~~~~~~v~~~~~-~~v~~~~~~~~~~f~FD~vf~~~~~q~~vy~~~~~~~v~~~~~G~n~~i~ayG~ 85 (325)
T cd01369 7 VCRFRPLNEKEELRGSKSIVKFPGE-DTVSIAGSDDGKTFSFDRVFPPNTTQEDVYNFVAKPIVDDVLNGYNGTIFAYGQ 85 (325)
T ss_pred EEEcCcCChhhhccCCceEEEEcCC-CEEEecCCCCceEEEcCeEECCCCCHHHHHHHHHHHHHHHHHcCccceEEEeCC
Confidence 5899999999977777788777544 556664 478999999999999999999999999999999999999999999
Q ss_pred CCCccceeecCCCC
Q psy15017 78 TGSGKTYTMGTGTF 91 (97)
Q Consensus 78 t~sGKt~T~~G~~~ 91 (97)
+||||||||+|+..
T Consensus 86 tgSGKT~Tm~G~~~ 99 (325)
T cd01369 86 TGSGKTYTMEGPPG 99 (325)
T ss_pred CCCCceEEecCCCC
Confidence 99999999999887
No 11
>KOG0245|consensus
Probab=99.95 E-value=1.1e-27 Score=185.48 Aligned_cols=90 Identities=33% Similarity=0.499 Sum_probs=76.6
Q ss_pred EEecCCCchhhhcCCceEEEEcCCCCeEEeC----CCeeeeccEEecCCC-------cHHHHHHHHHHHHHHHHhCCCCE
Q psy15017 2 CKIRPQSAREVIDMCRVCTFVTPGEPQVTLG----ADKSFTFDYVFDMAD-------VQTTIYELCAASLVAGSLEGYNA 70 (97)
Q Consensus 2 vRvRP~~~~e~~~~~~~~~~~~~~~~~~~~~----~~~~F~fd~vf~~~~-------~q~~v~~~~~~p~v~~~~~g~n~ 70 (97)
|||||+|.+|..+....++.+.....+++.. ....|+||+.||+++ +|..||+.++.+|++.+|+|||+
T Consensus 10 VRVRPfn~rE~s~~~k~Vvqm~gn~ttii~~~~~k~~~~FtfD~SYWS~d~edPhfAsQ~qVYedlg~~mL~~AfEGYN~ 89 (1221)
T KOG0245|consen 10 VRVRPFNAREKSRDAKCVVQMQGNTTTIINPKGSKDAPKFTFDYSYWSHDSEDPHFASQKQVYEDLGREMLDHAFEGYNV 89 (1221)
T ss_pred EEeccchhhhhhcccceEEEecCCceeeecCCCcccCCceecceeeecCCCCCCchhhHHHHHHHHhHHHHHHHhcccce
Confidence 8999999999988766666664444444332 235699999999984 89999999999999999999999
Q ss_pred EEEeeccCCCccceeecCCCC
Q psy15017 71 TILAYGQTGSGKTYTMGTGTF 91 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T~~G~~~ 91 (97)
||||||||||||+|||+|..+
T Consensus 90 ClFAYGQTGSGKSYTMMG~~~ 110 (1221)
T KOG0245|consen 90 CLFAYGQTGSGKSYTMMGFQE 110 (1221)
T ss_pred EEEEeccCCCCcceeeeccCC
Confidence 999999999999999999983
No 12
>cd01364 KISc_BimC_Eg5 Kinesin motor domain, BimC/Eg5 spindle pole proteins, participate in spindle assembly and chromosome segregation during cell division. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type), N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil d
Probab=99.95 E-value=2.6e-27 Score=169.90 Aligned_cols=92 Identities=35% Similarity=0.579 Sum_probs=82.0
Q ss_pred CEEecCCCchhhhcCCceEEEEcCCCCeEEeC-------CCeeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEE
Q psy15017 1 MCKIRPQSAREVIDMCRVCTFVTPGEPQVTLG-------ADKSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATIL 73 (97)
Q Consensus 1 ~vRvRP~~~~e~~~~~~~~~~~~~~~~~~~~~-------~~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ 73 (97)
+||+||+...|...+...++.+...++.+.+. ..+.|.||+||+++++|++||+.++.|+|+.+++|+|+|||
T Consensus 7 ~vRvRP~~~~e~~~~~~~~i~~~~~~~~i~~~~~~~~~~~~~~f~Fd~vf~~~~~q~~vy~~~~~plv~~~~~G~n~~i~ 86 (352)
T cd01364 7 VVRCRPRNSRERKEKSSVVVEVSGSSKEIIVSTGGADKQSTKTYTFDKVFGPEADQIEVYSQVVSPILDEVLMGYNCTIF 86 (352)
T ss_pred EEEcCcCCccccccCCCeEEEEcCCCcEEEEcCCCcccccceeEeccccCCCCCCHHHHHHHHHHHHHHHHhCCCeEEEE
Confidence 58999999999877777888877666666553 35889999999999999999999999999999999999999
Q ss_pred eeccCCCccceeecCCCCC
Q psy15017 74 AYGQTGSGKTYTMGTGTFS 92 (97)
Q Consensus 74 ayG~t~sGKt~T~~G~~~~ 92 (97)
|||++||||||||+|+...
T Consensus 87 ayG~tgSGKTyTl~G~~~~ 105 (352)
T cd01364 87 AYGQTGTGKTYTMEGDRTD 105 (352)
T ss_pred ECCCCCCCCcEEecCCCcc
Confidence 9999999999999998654
No 13
>cd01376 KISc_KID_like Kinesin motor domain, KIF22/Kid-like subgroup. Members of this group might play a role in regulating chromosomal movement along microtubules in mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through
Probab=99.95 E-value=3.1e-27 Score=167.72 Aligned_cols=93 Identities=29% Similarity=0.398 Sum_probs=77.0
Q ss_pred CEEecCCCchhhhcCCceEEEEcCCC----CeEEeC------CCeeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCE
Q psy15017 1 MCKIRPQSAREVIDMCRVCTFVTPGE----PQVTLG------ADKSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNA 70 (97)
Q Consensus 1 ~vRvRP~~~~e~~~~~~~~~~~~~~~----~~~~~~------~~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~ 70 (97)
+|||||+.++|. ....++.+.+.+ ..+.+. .+++|.||+||+++++|+++|+.++.|+|+.+++|+|+
T Consensus 5 ~vRvRP~~~~e~--~~~~~v~~~~~~~~~~~~v~~~~~~~~~~~~~f~FD~vf~~~~~q~~vy~~~~~plv~~~~~G~n~ 82 (319)
T cd01376 5 VVRVRPFLDCEE--DSSSCVRGIDSDQGQAKSVEIENPRNRGETKKYQFDAFYGTECTQEDIFSREVKPIVPHLLSGQNA 82 (319)
T ss_pred EEEeCcCCcccc--CCCceEEEeCCCCCcceEEEEeCCCCCCCccEEecCeEECCCCCHHHHHHHHHHHHHHHHhCCCce
Confidence 699999999983 334455443332 234332 35799999999999999999999999999999999999
Q ss_pred EEEeeccCCCccceeecCCCCCCCC
Q psy15017 71 TILAYGQTGSGKTYTMGTGTFSPIS 95 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T~~G~~~~~~~ 95 (97)
||||||++||||||||+|+..+++.
T Consensus 83 ~i~ayG~tgSGKTyTm~G~~~~~Gl 107 (319)
T cd01376 83 TVFAYGSTGAGKTHTMLGDPNEPGL 107 (319)
T ss_pred EEEEECCCCCCCcEEEeCCcCccch
Confidence 9999999999999999999887764
No 14
>cd01374 KISc_CENP_E Kinesin motor domain, CENP-E/KIP2-like subgroup, involved in chromosome movement and/or spindle elongation during mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to
Probab=99.95 E-value=3.7e-27 Score=167.38 Aligned_cols=93 Identities=40% Similarity=0.588 Sum_probs=79.7
Q ss_pred CEEecCCCchhhhcCCceEEEEcCCCCeEEeCC---CeeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEeecc
Q psy15017 1 MCKIRPQSAREVIDMCRVCTFVTPGEPQVTLGA---DKSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATILAYGQ 77 (97)
Q Consensus 1 ~vRvRP~~~~e~~~~~~~~~~~~~~~~~~~~~~---~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~ 77 (97)
+||+||++..|. .....++.+.++ ..+.+.. .+.|.||+||+++++|+++|+.++.|+|+.+++|+|+||||||+
T Consensus 5 ~vRvRP~~~~e~-~~~~~~~~~~~~-~~v~~~~~~~~~~f~fd~vf~~~~~q~~vy~~~~~p~v~~~l~G~n~~i~ayG~ 82 (321)
T cd01374 5 SVRVRPLNPRES-DNEQVAWSIDND-NTISLEESTPGQSFTFDRVFGGESTNREVYERIAKPVVRSALEGYNGTIFAYGQ 82 (321)
T ss_pred EEEcCcCCcccc-cCCcceEEECCC-CEEEEcCCCCCeEEecCeEECCCCCHHHHHHHHHHHHHHHHHCCCceeEEeecC
Confidence 589999999987 344555555554 4455433 79999999999999999999999999999999999999999999
Q ss_pred CCCccceeecCCCCCCCC
Q psy15017 78 TGSGKTYTMGTGTFSPIS 95 (97)
Q Consensus 78 t~sGKt~T~~G~~~~~~~ 95 (97)
+||||||||+|+..+++.
T Consensus 83 tgSGKT~T~~G~~~~~Gl 100 (321)
T cd01374 83 TSSGKTFTMSGDEQEPGI 100 (321)
T ss_pred CCCCCceeccCCCCCCch
Confidence 999999999999877754
No 15
>KOG0240|consensus
Probab=99.94 E-value=8.7e-27 Score=172.42 Aligned_cols=95 Identities=39% Similarity=0.605 Sum_probs=83.5
Q ss_pred CEEecCCCchhhhcCCceEEEEcCCCCeEEeCC---CeeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEeecc
Q psy15017 1 MCKIRPQSAREVIDMCRVCTFVTPGEPQVTLGA---DKSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATILAYGQ 77 (97)
Q Consensus 1 ~vRvRP~~~~e~~~~~~~~~~~~~~~~~~~~~~---~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~ 77 (97)
+||+||++..|.......+....+++..+.+.. .++|.||+||+++++|++||+.++.|+|+++|.|||++||||||
T Consensus 12 ~cR~rP~n~~E~~~~~~~i~~~~~~~~~v~~~~~~~~~~y~FDrVF~pnatQe~Vy~~~a~~Iv~dVL~GYNGTvfaYGq 91 (607)
T KOG0240|consen 12 VCRFRPLNGLENNLGSKFIDCFENGENTVVLETTKETKTYVFDRVFSPNATQEDVYEFAAKPIVDDVLLGYNGTVFAYGQ 91 (607)
T ss_pred EEEeecCCchhhhcCCcCccCCCCCcceEEEecccccccceeeeecCCCccHHHHHHHHHHHHHHHHhcccceeEEEecC
Confidence 589999999998777666655555466666644 38999999999999999999999999999999999999999999
Q ss_pred CCCccceeecCCCCCCCC
Q psy15017 78 TGSGKTYTMGTGTFSPIS 95 (97)
Q Consensus 78 t~sGKt~T~~G~~~~~~~ 95 (97)
|+|||||||+|...+|..
T Consensus 92 T~sGKTytm~G~~~d~~~ 109 (607)
T KOG0240|consen 92 TGSGKTYTMEGIGHDPEE 109 (607)
T ss_pred CCCCcceeecccCCChhh
Confidence 999999999999987765
No 16
>KOG0242|consensus
Probab=99.94 E-value=1.4e-26 Score=176.91 Aligned_cols=95 Identities=35% Similarity=0.468 Sum_probs=78.3
Q ss_pred CEEecCCCchhhhcCCceEEEEcCCCCeEEeC-C-------CeeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEE
Q psy15017 1 MCKIRPQSAREVIDMCRVCTFVTPGEPQVTLG-A-------DKSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATI 72 (97)
Q Consensus 1 ~vRvRP~~~~e~~~~~~~~~~~~~~~~~~~~~-~-------~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v 72 (97)
+||+||++.+|...+......+..+....... . +..|.||+||++.++|++||+..+.|++..+++|+|++|
T Consensus 11 ~vrvRP~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~y~FD~VF~~~~t~~~VYe~~tkpiv~~~l~G~N~TV 90 (675)
T KOG0242|consen 11 SVRVRPLNEREDARGDRSDWHCINDTTLFKRVTKSLPEKSKPEKYEFDRVFGEESTQEDVYERTTKPLLLSVLEGFNATV 90 (675)
T ss_pred EEEeCCCCccccccCCccceEecCCceeEeeccccccccccccceeeeeecCCCCCHHHHHHhccHHHHHHHhcCcccce
Confidence 48999999996554544544443333322211 1 389999999999999999999999999999999999999
Q ss_pred EeeccCCCccceeecCCCCCCCC
Q psy15017 73 LAYGQTGSGKTYTMGTGTFSPIS 95 (97)
Q Consensus 73 ~ayG~t~sGKt~T~~G~~~~~~~ 95 (97)
||||+|||||||||.|..++|+.
T Consensus 91 FAYG~TgSGKTyTM~G~~~~PGi 113 (675)
T KOG0242|consen 91 FAYGQTGSGKTYTMSGSEDDPGI 113 (675)
T ss_pred eeecCCCCCCceEEeccCCCCCe
Confidence 99999999999999999999985
No 17
>PLN03188 kinesin-12 family protein; Provisional
Probab=99.93 E-value=5.4e-26 Score=179.10 Aligned_cols=85 Identities=35% Similarity=0.587 Sum_probs=71.6
Q ss_pred CEEecCCCchhhhcCCceEEEEcCCCCeEEeCCCeeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCC
Q psy15017 1 MCKIRPQSAREVIDMCRVCTFVTPGEPQVTLGADKSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATILAYGQTGS 80 (97)
Q Consensus 1 ~vRvRP~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~s 80 (97)
+|||||++..|. +...+.. . .+..+.+ ..+.|.||+||++.++|++||+.++.|+|+.+++|+|+||||||+|||
T Consensus 103 ~VRVRPl~~~E~--g~~iV~~-~-s~dsl~I-~~qtFtFD~VFdp~aTQedVFe~vv~PLV~svLdGyNaTIFAYGQTGS 177 (1320)
T PLN03188 103 IVRMKPLNKGEE--GEMIVQK-M-SNDSLTI-NGQTFTFDSIADPESTQEDIFQLVGAPLVENCLAGFNSSVFAYGQTGS 177 (1320)
T ss_pred EEEcCCCCCccC--CCeeEEE-c-CCCeEEE-eCcEEeCCeeeCCCCCHHHHHHHHHHHHHHHHhcCCcceeecCCCCCC
Confidence 699999999863 3223322 2 3344555 568999999999999999999999999999999999999999999999
Q ss_pred ccceeecCCC
Q psy15017 81 GKTYTMGTGT 90 (97)
Q Consensus 81 GKt~T~~G~~ 90 (97)
||||||+|+.
T Consensus 178 GKTYTM~G~~ 187 (1320)
T PLN03188 178 GKTYTMWGPA 187 (1320)
T ss_pred CCCEeeCCCC
Confidence 9999999975
No 18
>cd00106 KISc Kinesin motor domain. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type), in some its is found in the middle (M-type), or C-terminal (C-type). N-type and M-type kinesins are (+) end-directed motors, while C-type kinesins are (-) end-directed motors, i.e. they transport cargo towards the (-) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coil
Probab=99.93 E-value=1.5e-25 Score=159.10 Aligned_cols=93 Identities=49% Similarity=0.680 Sum_probs=79.4
Q ss_pred CEEecCCCchhhhcCCceEEEEcCCCCeEEeCC--------CeeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEE
Q psy15017 1 MCKIRPQSAREVIDMCRVCTFVTPGEPQVTLGA--------DKSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATI 72 (97)
Q Consensus 1 ~vRvRP~~~~e~~~~~~~~~~~~~~~~~~~~~~--------~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v 72 (97)
+||+||++..|. .....++.+.++ .++.+.. .+.|.||+|||++++|+++|+.++.|+++.+++|+|+||
T Consensus 5 ~vRvrP~~~~~~-~~~~~~~~~~~~-~~v~~~~~~~~~~~~~~~f~fd~vf~~~~~q~~v~~~~~~~~v~~~~~G~~~~i 82 (328)
T cd00106 5 VVRIRPLNGRES-KSEESCITVDDN-KTVTLTPPKDGRKAGPKSFTFDHVFDPNSTQEDVYETTAKPLVESVLEGYNGTI 82 (328)
T ss_pred EEEcCCCCcccc-cCCCcEEEECCC-CEEEEecCccccCcCceEEECCeEEcCCCCHHHHHHHHHHHHHHHHhCCCceeE
Confidence 699999998873 445666666554 4454432 589999999999999999999999999999999999999
Q ss_pred EeeccCCCccceeecCCCCCCCC
Q psy15017 73 LAYGQTGSGKTYTMGTGTFSPIS 95 (97)
Q Consensus 73 ~ayG~t~sGKt~T~~G~~~~~~~ 95 (97)
|+||++||||||||+|+.++++.
T Consensus 83 ~~yG~tgSGKT~tl~G~~~~~Gl 105 (328)
T cd00106 83 FAYGQTGSGKTYTMFGSPKDPGI 105 (328)
T ss_pred EEecCCCCCCeEEecCCCCCCch
Confidence 99999999999999999887764
No 19
>cd01366 KISc_C_terminal Kinesin motor domain, KIFC2/KIFC3/ncd-like carboxy-terminal kinesins. Ncd is a spindle motor protein necessary for chromosome segregation in meiosis. KIFC2/KIFC3-like kinesins have been implicated in motility of the Golgi apparatus as well as dentritic and axonal transport in neurons. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this subgroup the motor domain is found at the C-terminus (C-type). C-type kinesins are (-) end-directed motors, i.e. they transport cargo towards the (-) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for mi
Probab=99.93 E-value=2.5e-25 Score=158.32 Aligned_cols=93 Identities=39% Similarity=0.611 Sum_probs=77.9
Q ss_pred CEEecCCCchhhhcCCceEEEEcCCC-CeEEeC----CCeeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEee
Q psy15017 1 MCKIRPQSAREVIDMCRVCTFVTPGE-PQVTLG----ADKSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATILAY 75 (97)
Q Consensus 1 ~vRvRP~~~~e~~~~~~~~~~~~~~~-~~~~~~----~~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ay 75 (97)
+||+||+...|. .....++.+.+.+ ..+.+. ..+.|.||+||+++++|+++|+. +.|+|+.+++|+|+|||||
T Consensus 7 ~vRirP~~~~e~-~~~~~~~~~~~~~~~~i~~~~~~~~~~~f~fD~vf~~~~~q~~v~~~-v~p~v~~~~~G~~~~i~ay 84 (329)
T cd01366 7 FCRVRPLLPSES-TEYSSVISFPDEDGGTIELSKGTGKKKSFSFDRVFDPDASQEDVFEE-VSPLVQSALDGYNVCIFAY 84 (329)
T ss_pred EEEcCcCCcccc-CCCccEEEEcCCCceEEEEeCCCCCceEEecCEEECCCCCHHHHHHH-HHHHHHHHhCCCceEEEEe
Confidence 699999999986 3334455555543 555553 35899999999999999999998 5999999999999999999
Q ss_pred ccCCCccceeecCCCCCCCC
Q psy15017 76 GQTGSGKTYTMGTGTFSPIS 95 (97)
Q Consensus 76 G~t~sGKt~T~~G~~~~~~~ 95 (97)
|++||||||||+|+.++++.
T Consensus 85 G~tgSGKT~tl~G~~~~~Gl 104 (329)
T cd01366 85 GQTGSGKTYTMEGPPENPGI 104 (329)
T ss_pred CCCCCCCcEEecCCCCCCCc
Confidence 99999999999999877764
No 20
>smart00129 KISc Kinesin motor, catalytic domain. ATPase. Microtubule-dependent molecular motors that play important roles in intracellular transport of organelles and in cell division.
Probab=99.93 E-value=3.7e-25 Score=157.63 Aligned_cols=95 Identities=42% Similarity=0.592 Sum_probs=83.3
Q ss_pred CEEecCCCchhhhcCCceEEEEcCCCC-eEEeC------CCeeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEE
Q psy15017 1 MCKIRPQSAREVIDMCRVCTFVTPGEP-QVTLG------ADKSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATIL 73 (97)
Q Consensus 1 ~vRvRP~~~~e~~~~~~~~~~~~~~~~-~~~~~------~~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ 73 (97)
+|||||++..|...+...++.+.+.+. .+.+. ..+.|.||+||+++++|+++|+.++.|+|+.+++|+|+|||
T Consensus 5 ~vRvrP~~~~e~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~f~fD~vf~~~~~q~~v~~~~~~p~v~~~~~G~~~~i~ 84 (335)
T smart00129 5 VVRVRPLNKREKSRKSPSVVPFDDKDGKTLNVNSPKNRKEEKKFTFDKVFGATASQEDVFEETAAPLVDSVLEGYNATIF 84 (335)
T ss_pred EEEcCcCCccchhcCCceEEEEcCCCCCEEEEeCCCCCCCCeEEecCEEECCCCChHHHHHHHHHHHHHHHhcCCceeEE
Confidence 599999999998877788887765543 44443 35899999999999999999999999999999999999999
Q ss_pred eeccCCCccceeecCCCCCCCC
Q psy15017 74 AYGQTGSGKTYTMGTGTFSPIS 95 (97)
Q Consensus 74 ayG~t~sGKt~T~~G~~~~~~~ 95 (97)
+||++||||||||+|+.++++.
T Consensus 85 ~yG~tgSGKT~tl~G~~~~~Gl 106 (335)
T smart00129 85 AYGQTGSGKTYTMSGTPDSPGI 106 (335)
T ss_pred EeCCCCCCCceEecCCCCCCCH
Confidence 9999999999999999887753
No 21
>cd01375 KISc_KIF9_like Kinesin motor domain, KIF9-like subgroup; might play a role in cell shape remodeling. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second tubulin dimer, about 80
Probab=99.93 E-value=1.7e-25 Score=159.69 Aligned_cols=85 Identities=41% Similarity=0.652 Sum_probs=69.6
Q ss_pred CEEecCCCchhhhcCCceEEEEcCCCCeEEe--------------CCCeeeeccEEecCCCcHHHHHHHHHHHHHHHHhC
Q psy15017 1 MCKIRPQSAREVIDMCRVCTFVTPGEPQVTL--------------GADKSFTFDYVFDMADVQTTIYELCAASLVAGSLE 66 (97)
Q Consensus 1 ~vRvRP~~~~e~~~~~~~~~~~~~~~~~~~~--------------~~~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~ 66 (97)
+||+||+...+.. .+.+.+++.++.+ ...+.|.||+||++ ++|+++|+.++.|+|+.+++
T Consensus 5 ~vRvRP~~~~~~~-----~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~f~FD~vf~~-~~q~~vy~~~~~p~v~~~~~ 78 (334)
T cd01375 5 FVRVRPTPTKQGS-----SIKLGPDGKSVSSNLPKDLVRGVVNNQQEDFSFKFDGVFHN-ASQEEVYETVAKPVVDSALD 78 (334)
T ss_pred EEECCCCCCCCCc-----cEEEcCCCCEEEEecccccccccccCCcCceEEEcCcccCC-CCHHHHHHHHHHHHHHHHhC
Confidence 5999999985532 2233444333222 13578999999999 99999999999999999999
Q ss_pred CCCEEEEeeccCCCccceeecCCCC
Q psy15017 67 GYNATILAYGQTGSGKTYTMGTGTF 91 (97)
Q Consensus 67 g~n~~v~ayG~t~sGKt~T~~G~~~ 91 (97)
|+|+||||||++||||||||+|+..
T Consensus 79 G~n~~i~ayG~tgSGKTyTm~G~~~ 103 (334)
T cd01375 79 GYNGTIFAYGQTGAGKTFTMTGGTE 103 (334)
T ss_pred CCccceeeecCCCCCCeEEccCCCC
Confidence 9999999999999999999999864
No 22
>PF00225 Kinesin: Kinesin motor domain; InterPro: IPR001752 Kinesin [, , ] is a microtubule-associated force-producing protein that may play a role in organelle transport. The kinesin motor activity is directed toward the microtubule's plus end. Kinesin is an oligomeric complex composed of two heavy chains and two light chains. The maintenance of the quaternary structure does not require interchain disulphide bonds. The heavy chain is composed of three structural domains: a large globular N-terminal domain which is responsible for the motor activity of kinesin (it is known to hydrolyse ATP, to bind and move on microtubules), a central alpha-helical coiled coil domain that mediates the heavy chain dimerisation; and a small globular C-terminal domain which interacts with other proteins (such as the kinesin light chains), vesicles and membranous organelles. A number of proteins have been recently found that contain a domain similar to that of the kinesin 'motor' domain [, ]: Drosophila melanogaster claret segregational protein (ncd). Ncd is required for normal chromosomal segregation in meiosis, in females, and in early mitotic divisions of the embryo. The ncd motor activity is directed toward the microtubule's minus end. Homo sapiens CENP-E []. CENP-E is a protein that associates with kinetochores during chromosome congression, relocates to the spindle midzone at anaphase, and is quantitatively discarded at the end of the cell division. CENP-E is probably an important motor molecule in chromosome movement and/or spindle elongation. H. sapiens mitotic kinesin-like protein-1 (MKLP-1), a motor protein whose activity is directed toward the microtubule's plus end. Saccharomyces cerevisiae KAR3 protein, which is essential for nuclear fusion during mating. KAR3 may mediate microtubule sliding during nuclear fusion and possibly mitosis. S. cerevisiae CIN8 and KIP1 proteins which are required for the assembly of the mitotic spindle. Both proteins seem to interact with spindle microtubules to produce an outwardly directed force acting upon the poles. Emericella nidulans (Aspergillus nidulans) bimC, which plays an important role in nuclear division. A. nidulans klpA. Caenorhabditis elegans unc-104, which may be required for the transport of substances needed for neuronal cell differentiation. C. elegans osm-3. Xenopus laevis Eg5, which may be involved in mitosis. Arabidopsis thaliana KatA, KatB and katC. Chlamydomonas reinhardtii FLA10/KHP1 and KLP1. Both proteins seem to play a role in the rotation or twisting of the microtubules of the flagella. C. elegans hypothetical protein T09A5.2. The kinesin motor domain is located in the N-terminal part of most of the above proteins, with the exception of KAR3, klpA, and ncd where it is located in the C-terminal section. The kinesin motor domain contains about 330 amino acids. An ATP-binding motif of type A is found near position 80 to 90, the C-terminal half of the domain is involved in microtubule-binding.; GO: 0003777 microtubule motor activity, 0005524 ATP binding, 0007018 microtubule-based movement; PDB: 3NWN_A 2Y5W_A 2Y65_C 3BFN_A 2WBE_C 2ZFL_A 2ZFI_A 1I6I_A 2ZFM_A 1IA0_K ....
Probab=99.92 E-value=6.4e-26 Score=161.36 Aligned_cols=92 Identities=41% Similarity=0.577 Sum_probs=75.7
Q ss_pred EecCCCchhhhcCCceEEEEcCCCC--------eEEeCCCeeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEe
Q psy15017 3 KIRPQSAREVIDMCRVCTFVTPGEP--------QVTLGADKSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATILA 74 (97)
Q Consensus 3 RvRP~~~~e~~~~~~~~~~~~~~~~--------~~~~~~~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~a 74 (97)
||||++..|.......++.+..... .......+.|.||+|||++++|++||+.++.|+|+.+++|+|+||||
T Consensus 1 RvRP~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~FD~vf~~~~~q~~vy~~~~~~~v~~~l~G~n~~i~a 80 (335)
T PF00225_consen 1 RVRPLNESEKESSAESIVSVDNQDSNQNKQSVNSNNSQKEKSFRFDRVFDEDATQEDVYEEVVSPLVDSVLDGYNATIFA 80 (335)
T ss_dssp EEES-CHHHHHTTTEBCEEEETTETEEEEEETTEEETTEEEEEEESEEEETTSTHHHHHHHHTHHHHHHHHTT-EEEEEE
T ss_pred CcCCCCHHHHhCCCcEEEEecCCccccccccccccCCCCceEEEcCeEECCCCCHHHHHHHHHHHHHHHhhcCCceEEEe
Confidence 9999999999887777766543211 11123468999999999999999999999999999999999999999
Q ss_pred eccCCCccceeecCC--CCCCC
Q psy15017 75 YGQTGSGKTYTMGTG--TFSPI 94 (97)
Q Consensus 75 yG~t~sGKt~T~~G~--~~~~~ 94 (97)
||++||||||||+|+ ...|+
T Consensus 81 yG~tgSGKT~Tm~G~~~~~~~G 102 (335)
T PF00225_consen 81 YGQTGSGKTYTMFGSNDPSEPG 102 (335)
T ss_dssp EESTTSSHHHHHTBSTSTTTBS
T ss_pred eccccccccccccccccccccc
Confidence 999999999999998 55554
No 23
>KOG0246|consensus
Probab=99.92 E-value=3e-25 Score=164.59 Aligned_cols=92 Identities=36% Similarity=0.492 Sum_probs=80.7
Q ss_pred CEEecCCCchhhhcCCceEEEEcCCCCeEEeC-----------CCeeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCC
Q psy15017 1 MCKIRPQSAREVIDMCRVCTFVTPGEPQVTLG-----------ADKSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYN 69 (97)
Q Consensus 1 ~vRvRP~~~~e~~~~~~~~~~~~~~~~~~~~~-----------~~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n 69 (97)
+||-||+|.+|.......++++..++..+... .+++|.||++||+.+++++||..++.|+|+.+|+|--
T Consensus 213 CVRKRPLnkkE~~~keiDvisvps~~~l~vHEpk~kVDLtkYlEn~~F~FDyaFDe~~sNe~VYrfTa~PlV~~IF~~G~ 292 (676)
T KOG0246|consen 213 CVRKRPLNKKELTKKEIDVISVPSKNVLVVHEPKLKVDLTKYLENQKFRFDYAFDESASNELVYRFTAKPLVKTIFEGGM 292 (676)
T ss_pred EeecCCCCchhccccccceEeccccceEEeeccccccchHHHHhhceEEEeeecccccchHHHHHHhhhHHHHHHHhCCc
Confidence 58999999999988888888876655543332 3689999999999999999999999999999999999
Q ss_pred EEEEeeccCCCccceeecCCCCC
Q psy15017 70 ATILAYGQTGSGKTYTMGTGTFS 92 (97)
Q Consensus 70 ~~v~ayG~t~sGKt~T~~G~~~~ 92 (97)
+++||||||||||||||+|+...
T Consensus 293 ATCFAYGQTGSGKT~TMggdfsg 315 (676)
T KOG0246|consen 293 ATCFAYGQTGSGKTYTMGGDFSG 315 (676)
T ss_pred eeeeeeccCCCCceeecccccCc
Confidence 99999999999999999887654
No 24
>KOG0239|consensus
Probab=99.92 E-value=4.2e-25 Score=168.58 Aligned_cols=93 Identities=37% Similarity=0.560 Sum_probs=72.9
Q ss_pred CEEecCCCchhhhcCCceEEEEcCCCCeEEeC--------CCeeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEE
Q psy15017 1 MCKIRPQSAREVIDMCRVCTFVTPGEPQVTLG--------ADKSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATI 72 (97)
Q Consensus 1 ~vRvRP~~~~e~~~~~~~~~~~~~~~~~~~~~--------~~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v 72 (97)
||||||+.+.|....+..++..... ..+.+. ..+.|.||+||++.++|++||.. +.|+|..+|+|||.||
T Consensus 319 ~CRvRP~~~~e~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~f~fdkVf~p~~sQ~~VF~e-~~~lv~S~lDGYnVCI 396 (670)
T KOG0239|consen 319 FCRVRPLLPSEKQRLQSKVIDTEEQ-GEVQVDSPDKGDKLEPQSFKFDKVFGPLASQDDVFEE-VSPLVQSALDGYNVCI 396 (670)
T ss_pred EEEecCCCccccccccccccccCCc-ceeEeecCCCCCCCccccceeeeecCCcccHHHHHHH-HHHHHHHHhcCcceeE
Confidence 6899999999986544444333222 112221 12359999999999999999988 7999999999999999
Q ss_pred EeeccCCCccceeecC-CCCCCCC
Q psy15017 73 LAYGQTGSGKTYTMGT-GTFSPIS 95 (97)
Q Consensus 73 ~ayG~t~sGKt~T~~G-~~~~~~~ 95 (97)
||||||||||||||.| +.++++.
T Consensus 397 FAYGQTGSGKTyTM~G~~~~~~Gi 420 (670)
T KOG0239|consen 397 FAYGQTGSGKTYTMSGPTPEDPGI 420 (670)
T ss_pred EEecccCCCccccccCCCcccCCc
Confidence 9999999999999999 5666653
No 25
>KOG0241|consensus
Probab=99.91 E-value=1.1e-24 Score=168.55 Aligned_cols=95 Identities=31% Similarity=0.467 Sum_probs=81.3
Q ss_pred CEEecCCCchhhhcCCceEEEEcCCCCeEEe----------CCCeeeeccEEecCC-------CcHHHHHHHHHHHHHHH
Q psy15017 1 MCKIRPQSAREVIDMCRVCTFVTPGEPQVTL----------GADKSFTFDYVFDMA-------DVQTTIYELCAASLVAG 63 (97)
Q Consensus 1 ~vRvRP~~~~e~~~~~~~~~~~~~~~~~~~~----------~~~~~F~fd~vf~~~-------~~q~~v~~~~~~p~v~~ 63 (97)
.|||||++.+|........+.++..++.+.. +.+++|.||++||+. ++|+.||..+...+++.
T Consensus 9 aVRVRP~nrREl~l~tk~vv~vd~~q~vl~~~pp~~~~~~~k~pktFAFDhcF~s~dpes~n~agQE~Vf~~lG~~il~n 88 (1714)
T KOG0241|consen 9 AVRVRPMNRRELELSTKCVVEVDKNQTVLHPPPPNHKIGESKGPKTFAFDHCFWSMDPESKNYAGQETVFKCLGEGILEN 88 (1714)
T ss_pred EEEecccchhhhcccccceEEeccCceeecCCCccccccccCCCceeecccccccCCccccccccchhHHHhcchHHHHH
Confidence 3899999999987666666666544443322 247999999999987 48999999999999999
Q ss_pred HhCCCCEEEEeeccCCCccceeecCCCCCCCC
Q psy15017 64 SLEGYNATILAYGQTGSGKTYTMGTGTFSPIS 95 (97)
Q Consensus 64 ~~~g~n~~v~ayG~t~sGKt~T~~G~~~~~~~ 95 (97)
+|+|||+|||||||+||||+|||+|..+.|++
T Consensus 89 af~GyNaCifaYGQtGsGKsYsmmGt~~QpGi 120 (1714)
T KOG0241|consen 89 AFQGYNACIFAYGQTGSGKSYSMMGTAEQPGI 120 (1714)
T ss_pred HhhccceeeEEecccCCCceeEeeccCCCCCc
Confidence 99999999999999999999999999999986
No 26
>KOG0247|consensus
Probab=99.85 E-value=4.1e-21 Score=145.67 Aligned_cols=92 Identities=35% Similarity=0.508 Sum_probs=74.4
Q ss_pred CEEecCCCchhhhcCCceEEEEcCCCCeEEe--------------CCCeeeeccEEecCCCcHHHHHHHHHHHHHHHHhC
Q psy15017 1 MCKIRPQSAREVIDMCRVCTFVTPGEPQVTL--------------GADKSFTFDYVFDMADVQTTIYELCAASLVAGSLE 66 (97)
Q Consensus 1 ~vRvRP~~~~e~~~~~~~~~~~~~~~~~~~~--------------~~~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~ 66 (97)
++|+||+.+.. .+..|+.+.+....+.. ...+.|.|.+||+++++|.++|+.++.|+|.+++.
T Consensus 36 ~~rvrP~~~~~---~~~g~l~v~n~~tivL~~P~d~~~~~~~n~~q~e~~fsFt~VF~p~~tQ~dvF~~~~~plV~dlLk 112 (809)
T KOG0247|consen 36 VCRVRPLSDAS---EDEGCLRVINEETIVLETPEDSFARRSVNGGQMEKKFSFTKVFGPSVTQADVFDTTVAPLVKDLLK 112 (809)
T ss_pred eEeecCCCCCc---cccceEEEeccceeEeeCcHHHHhhhccCccceeeEeeeeeecCCCccHHHHHHHHhHHHHHHHHc
Confidence 68999998622 23345554433332211 12478999999999999999999999999999999
Q ss_pred CCCEEEEeeccCCCccceeecCCCCCCCC
Q psy15017 67 GYNATILAYGQTGSGKTYTMGTGTFSPIS 95 (97)
Q Consensus 67 g~n~~v~ayG~t~sGKt~T~~G~~~~~~~ 95 (97)
|.|..+|+||.|||||||||.|+...+++
T Consensus 113 gqn~LlFTyGVTgSGKTYTm~G~~~~~GI 141 (809)
T KOG0247|consen 113 GQNSLLFTYGVTGSGKTYTMTGTPDRPGI 141 (809)
T ss_pred ccceeEEEeeccCCCceEEeecCCCCCCc
Confidence 99999999999999999999999998873
No 27
>KOG0244|consensus
Probab=99.80 E-value=9.3e-20 Score=140.93 Aligned_cols=86 Identities=53% Similarity=0.851 Sum_probs=83.6
Q ss_pred ecCCCchhhhcCCceEEEEcCCCCeEEeCCCeeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCccc
Q psy15017 4 IRPQSAREVIDMCRVCTFVTPGEPQVTLGADKSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKT 83 (97)
Q Consensus 4 vRP~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt 83 (97)
|||+..+|..+++..|+.+.+.++++.+....+|+||++|+.-..|.++|+.++.|+++.+++|||++++|||+||||||
T Consensus 1 vRpl~~~e~~~g~~~c~~~~~~~pqv~ig~~~s~t~d~v~~~~~~Q~~~~e~~V~~l~~~lf~gynatvlaygQtgsgkT 80 (913)
T KOG0244|consen 1 VRPLKQMEEEQGCRRCTEVSPRTPQVAIGKDASFTYDKVFLDLESQKEVYESCVRPLREKLFAGYNATVLAYGQTGSGKT 80 (913)
T ss_pred CCCccchHHHhcchhhcccCCCCCceeecCCcceeeeeeccCchHHHHHHHHHHHHHHHHHhhhhcceeeeecccCCCce
Confidence 69999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeecCC
Q psy15017 84 YTMGTG 89 (97)
Q Consensus 84 ~T~~G~ 89 (97)
|||.++
T Consensus 81 ytmgt~ 86 (913)
T KOG0244|consen 81 YTMGTN 86 (913)
T ss_pred eecccc
Confidence 999766
No 28
>COG5059 KIP1 Kinesin-like protein [Cytoskeleton]
Probab=99.75 E-value=3.7e-18 Score=129.16 Aligned_cols=62 Identities=44% Similarity=0.679 Sum_probs=58.7
Q ss_pred CeeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCccceeecCCCCCCCC
Q psy15017 34 DKSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTYTMGTGTFSPIS 95 (97)
Q Consensus 34 ~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T~~G~~~~~~~ 95 (97)
..+|.||+||++.++|+++|+..+.|+++.++.|+|||+||||+||+||||||.|..+.++.
T Consensus 55 ~~~~~fdkvf~~~~~q~~v~e~~~~~l~~~~l~g~N~TvfayGqTgsgKtyt~~G~~~~~Gi 116 (568)
T COG5059 55 EGTYAFDKVFGPSATQEDVYEETIKPLIDSLLLGYNCTVFAYGQTGSGKTYTMSGTEEEPGI 116 (568)
T ss_pred ceEEEEeeccCCCCcHHHHHHHhhhhHHHHHHhcccceEEEEcccCCCceeEeecCccccch
Confidence 56799999999999999999999999999999999999999999999999999999977654
No 29
>cd01363 Motor_domain Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes.
Probab=99.70 E-value=2.6e-17 Score=109.19 Aligned_cols=42 Identities=45% Similarity=0.714 Sum_probs=39.7
Q ss_pred HHHHHHHHHHHHHhCCCCEEEEeeccCCCccceeecCCCCCCC
Q psy15017 52 IYELCAASLVAGSLEGYNATILAYGQTGSGKTYTMGTGTFSPI 94 (97)
Q Consensus 52 v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T~~G~~~~~~ 94 (97)
+|+.+. |+++.+++|+|+|||+||++||||||||+|+.++++
T Consensus 8 vf~~~~-~~v~~~~~G~n~~i~~yG~tGsGKT~Tm~G~~~~~G 49 (186)
T cd01363 8 VFRDVG-PLLQSALDGYNVCIFAYGQTGSGKTYTMEGKREGAG 49 (186)
T ss_pred HHHHHH-HHHHHHhCCcceeEEEECCCCCcceEecCCCCCCCC
Confidence 999999 999999999999999999999999999999986654
No 30
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=95.95 E-value=0.0078 Score=46.29 Aligned_cols=47 Identities=40% Similarity=0.521 Sum_probs=35.0
Q ss_pred eeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 35 KSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 35 ~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
..|....-|.+..+|..--+. +++.+-.|....++ .|.|||||||||
T Consensus 3 ~~F~l~s~f~PaGDQP~AI~~----Lv~gi~~g~~~QtL-LGvTGSGKTfT~ 49 (663)
T COG0556 3 KPFKLHSPFKPAGDQPEAIAE----LVEGIENGLKHQTL-LGVTGSGKTFTM 49 (663)
T ss_pred CceEeccCCCCCCCcHHHHHH----HHHHHhcCceeeEE-eeeccCCchhHH
Confidence 456777778888888765444 67777777654432 699999999998
No 31
>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=95.65 E-value=0.0084 Score=40.74 Aligned_cols=50 Identities=26% Similarity=0.449 Sum_probs=28.4
Q ss_pred eeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCccceeec
Q psy15017 35 KSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 35 ~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T~~ 87 (97)
..|+||.-... ..++..+... ..+.+.--..+| .++-||.+|+||||-|.
T Consensus 3 ~~~tFdnfv~g-~~N~~a~~~~-~~ia~~~~~~~~-~l~l~G~~G~GKTHLL~ 52 (219)
T PF00308_consen 3 PKYTFDNFVVG-ESNELAYAAA-KAIAENPGERYN-PLFLYGPSGLGKTHLLQ 52 (219)
T ss_dssp TT-SCCCS--T-TTTHHHHHHH-HHHHHSTTTSSS-EEEEEESTTSSHHHHHH
T ss_pred CCCccccCCcC-CcHHHHHHHH-HHHHhcCCCCCC-ceEEECCCCCCHHHHHH
Confidence 46788765443 3466666442 233333112234 47889999999999663
No 32
>PRK06893 DNA replication initiation factor; Validated
Probab=95.35 E-value=0.024 Score=38.64 Aligned_cols=49 Identities=14% Similarity=0.094 Sum_probs=30.2
Q ss_pred CCeeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCccceeec
Q psy15017 33 ADKSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 33 ~~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T~~ 87 (97)
.+..++||..+... +...+. . +.+..-...+..++-||.+|+||||-+.
T Consensus 9 ~~~~~~fd~f~~~~-~~~~~~-~----~~~~~~~~~~~~l~l~G~~G~GKThL~~ 57 (229)
T PRK06893 9 QIDDETLDNFYADN-NLLLLD-S----LRKNFIDLQQPFFYIWGGKSSGKSHLLK 57 (229)
T ss_pred CCCcccccccccCC-hHHHHH-H----HHHHhhccCCCeEEEECCCCCCHHHHHH
Confidence 35567788777543 222221 1 1222234667778999999999999773
No 33
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=95.21 E-value=0.012 Score=42.46 Aligned_cols=30 Identities=37% Similarity=0.446 Sum_probs=26.7
Q ss_pred HHHHHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 57 AASLVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 57 ~~p~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
+.|++..+.+-.++.|++=|.||||||.||
T Consensus 113 lP~i~~~~~~~~~GLILVTGpTGSGKSTTl 142 (353)
T COG2805 113 LPPIVRELAESPRGLILVTGPTGSGKSTTL 142 (353)
T ss_pred CCHHHHHHHhCCCceEEEeCCCCCcHHHHH
Confidence 346888888999999999999999999997
No 34
>PRK06620 hypothetical protein; Validated
Probab=94.95 E-value=0.028 Score=38.11 Aligned_cols=52 Identities=25% Similarity=0.371 Sum_probs=32.9
Q ss_pred CCCeeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCC---EEEEeeccCCCccceeec
Q psy15017 32 GADKSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYN---ATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 32 ~~~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n---~~v~ayG~t~sGKt~T~~ 87 (97)
..+..|+||...... +++..|..... +.+. . +.| ..++=||.+|+||||-+.
T Consensus 8 ~~~~~~tfd~Fvvg~-~N~~a~~~~~~-~~~~-~-~~~~~~~~l~l~Gp~G~GKThLl~ 62 (214)
T PRK06620 8 TTSSKYHPDEFIVSS-SNDQAYNIIKN-WQCG-F-GVNPYKFTLLIKGPSSSGKTYLTK 62 (214)
T ss_pred CCCCCCCchhhEecc-cHHHHHHHHHH-HHHc-c-ccCCCcceEEEECCCCCCHHHHHH
Confidence 345678888766544 45556665433 2221 1 222 458889999999999884
No 35
>PRK09087 hypothetical protein; Validated
Probab=94.81 E-value=0.033 Score=38.06 Aligned_cols=49 Identities=20% Similarity=0.179 Sum_probs=31.6
Q ss_pred CCeeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCccceeec
Q psy15017 33 ADKSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 33 ~~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T~~ 87 (97)
.+..|+||..+... .+...|.. +.......+..++=||.+||||||-+.
T Consensus 14 ~~~~~~~~~Fi~~~-~N~~a~~~-----l~~~~~~~~~~l~l~G~~GsGKThLl~ 62 (226)
T PRK09087 14 HDPAYGRDDLLVTE-SNRAAVSL-----VDHWPNWPSPVVVLAGPVGSGKTHLAS 62 (226)
T ss_pred CCCCCChhceeecC-chHHHHHH-----HHhcccCCCCeEEEECCCCCCHHHHHH
Confidence 45667888766544 34446663 223223345557889999999999874
No 36
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=94.81 E-value=0.039 Score=40.00 Aligned_cols=54 Identities=26% Similarity=0.289 Sum_probs=32.4
Q ss_pred CCeeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 33 ADKSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 33 ~~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
.+..|..+++-+.-...++-.+....-+-+.+..+....++-||..|+|||+++
T Consensus 19 ~~~~l~~~~~P~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~ 72 (394)
T PRK00411 19 DEEVLEPDYVPENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTV 72 (394)
T ss_pred ChhhCCCCCcCCCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHH
Confidence 444555555554444555555554333323233445566889999999999876
No 37
>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=94.61 E-value=0.03 Score=40.12 Aligned_cols=49 Identities=29% Similarity=0.329 Sum_probs=29.5
Q ss_pred eeccEEecCCCcHHHHHHHHHHHHHHHHhC-CCCEEEEeeccCCCccceee
Q psy15017 37 FTFDYVFDMADVQTTIYELCAASLVAGSLE-GYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 37 F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~-g~n~~v~ayG~t~sGKt~T~ 86 (97)
+.-|++-+.-...++-.+.+.. .+...+. +...+++-||..|+|||+++
T Consensus 8 l~~~~~p~~l~gRe~e~~~l~~-~l~~~~~~~~~~~i~I~G~~GtGKT~l~ 57 (365)
T TIGR02928 8 LEPDYVPDRIVHRDEQIEELAK-ALRPILRGSRPSNVFIYGKTGTGKTAVT 57 (365)
T ss_pred CCCCCCCCCCCCcHHHHHHHHH-HHHHHHcCCCCCcEEEECCCCCCHHHHH
Confidence 3334444444445554544333 3344443 45567889999999999887
No 38
>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=94.03 E-value=0.053 Score=32.66 Aligned_cols=27 Identities=30% Similarity=0.319 Sum_probs=18.7
Q ss_pred HHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 60 LVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 60 ~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
+...+.......++-+|.+|+|||+.+
T Consensus 10 i~~~~~~~~~~~v~i~G~~G~GKT~l~ 36 (151)
T cd00009 10 LREALELPPPKNLLLYGPPGTGKTTLA 36 (151)
T ss_pred HHHHHhCCCCCeEEEECCCCCCHHHHH
Confidence 333444434556788999999999765
No 39
>PRK05642 DNA replication initiation factor; Validated
Probab=93.91 E-value=0.061 Score=36.84 Aligned_cols=48 Identities=17% Similarity=0.225 Sum_probs=28.1
Q ss_pred CCeeeeccEEecCCCcHHHHHHHHHHHHHHHHhC----CCCEEEEeeccCCCccceeec
Q psy15017 33 ADKSFTFDYVFDMADVQTTIYELCAASLVAGSLE----GYNATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 33 ~~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~----g~n~~v~ayG~t~sGKt~T~~ 87 (97)
-+..|+||.-... .+... ...++...+ .....++-||.+|+||||-+.
T Consensus 12 ~~~~~tfdnF~~~--~~~~a-----~~~~~~~~~~~~~~~~~~l~l~G~~G~GKTHLl~ 63 (234)
T PRK05642 12 LRDDATFANYYPG--ANAAA-----LGYVERLCEADAGWTESLIYLWGKDGVGRSHLLQ 63 (234)
T ss_pred CCCcccccccCcC--ChHHH-----HHHHHHHhhccccCCCCeEEEECCCCCCHHHHHH
Confidence 3556788866633 23222 223333322 223457789999999999864
No 40
>PRK08084 DNA replication initiation factor; Provisional
Probab=93.76 E-value=0.08 Score=36.23 Aligned_cols=49 Identities=10% Similarity=0.166 Sum_probs=30.5
Q ss_pred CCeeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCccceeec
Q psy15017 33 ADKSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 33 ~~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T~~ 87 (97)
-+..++||..+.. .+...+...-. +. .......++-||.+|+||||-+.
T Consensus 15 ~~~~~~fd~f~~~--~n~~a~~~l~~-~~---~~~~~~~l~l~Gp~G~GKThLl~ 63 (235)
T PRK08084 15 LPDDETFASFYPG--DNDSLLAALQN-AL---RQEHSGYIYLWSREGAGRSHLLH 63 (235)
T ss_pred CCCcCCccccccC--ccHHHHHHHHH-HH---hCCCCCeEEEECCCCCCHHHHHH
Confidence 4566778765544 55556644322 22 12223468889999999999874
No 41
>PF01935 DUF87: Domain of unknown function DUF87; InterPro: IPR002789 The function of this domain is unknown. It contains several conserved aspartates and histidines that could be metal ligands.
Probab=93.43 E-value=0.025 Score=38.11 Aligned_cols=15 Identities=53% Similarity=0.866 Sum_probs=12.8
Q ss_pred EEeeccCCCccceee
Q psy15017 72 ILAYGQTGSGKTYTM 86 (97)
Q Consensus 72 v~ayG~t~sGKt~T~ 86 (97)
+..+|.||||||+|+
T Consensus 26 ~~I~G~TGsGKS~~~ 40 (229)
T PF01935_consen 26 IAIFGTTGSGKSNTV 40 (229)
T ss_pred EEEECCCCCCHHHHH
Confidence 346899999999987
No 42
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=93.43 E-value=0.042 Score=41.84 Aligned_cols=30 Identities=37% Similarity=0.351 Sum_probs=24.8
Q ss_pred HHHHHHHhCCCCEEEEeeccCCCccceeec
Q psy15017 58 ASLVAGSLEGYNATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 58 ~p~v~~~~~g~n~~v~ayG~t~sGKt~T~~ 87 (97)
...+..+++.-.+-++.=|.||||||.||+
T Consensus 247 ~~~~~~~~~~p~GliLvTGPTGSGKTTTLY 276 (500)
T COG2804 247 LARLLRLLNRPQGLILVTGPTGSGKTTTLY 276 (500)
T ss_pred HHHHHHHHhCCCeEEEEeCCCCCCHHHHHH
Confidence 345667778888888888999999999996
No 43
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=93.40 E-value=0.089 Score=38.62 Aligned_cols=26 Identities=42% Similarity=0.641 Sum_probs=19.1
Q ss_pred HHHHh-CCCCEEEEeeccCCCccceee
Q psy15017 61 VAGSL-EGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 61 v~~~~-~g~n~~v~ayG~t~sGKt~T~ 86 (97)
+..++ .+....++.||.+|+|||.|+
T Consensus 33 l~~~~~~~~p~n~~iyG~~GTGKT~~~ 59 (366)
T COG1474 33 LAPALRGERPSNIIIYGPTGTGKTATV 59 (366)
T ss_pred HHHHhcCCCCccEEEECCCCCCHhHHH
Confidence 33444 444555999999999999886
No 44
>PRK08116 hypothetical protein; Validated
Probab=93.16 E-value=0.079 Score=37.13 Aligned_cols=51 Identities=27% Similarity=0.442 Sum_probs=31.0
Q ss_pred eeeeccEEecCCCcHHHHHHHHHHHHHHHHhC--CCCEEEEeeccCCCccceeec
Q psy15017 35 KSFTFDYVFDMADVQTTIYELCAASLVAGSLE--GYNATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 35 ~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~--g~n~~v~ayG~t~sGKt~T~~ 87 (97)
..++||.-. ....+...+.. +...++.+.+ ..+..++-||.+|+||||-+.
T Consensus 80 ~~~tFdnf~-~~~~~~~a~~~-a~~y~~~~~~~~~~~~gl~l~G~~GtGKThLa~ 132 (268)
T PRK08116 80 RNSTFENFL-FDKGSEKAYKI-ARKYVKKFEEMKKENVGLLLWGSVGTGKTYLAA 132 (268)
T ss_pred Hhcchhccc-CChHHHHHHHH-HHHHHHHHHhhccCCceEEEECCCCCCHHHHHH
Confidence 456666433 34455555544 4445555433 234458889999999999763
No 45
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=93.13 E-value=0.079 Score=41.44 Aligned_cols=51 Identities=25% Similarity=0.410 Sum_probs=31.2
Q ss_pred CeeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCccceeec
Q psy15017 34 DKSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 34 ~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T~~ 87 (97)
+..|+||..+-.. +++..|.. +..+.+..-..+|. +|-||.+|+||||-+.
T Consensus 282 ~~~~TFDnFvvG~-sN~~A~aa-a~avae~~~~~~Np-L~LyG~sGsGKTHLL~ 332 (617)
T PRK14086 282 NPKYTFDTFVIGA-SNRFAHAA-AVAVAEAPAKAYNP-LFIYGESGLGKTHLLH 332 (617)
T ss_pred CCCCCHhhhcCCC-ccHHHHHH-HHHHHhCccccCCc-EEEECCCCCCHHHHHH
Confidence 3568887554333 34455533 33334333335564 7889999999999873
No 46
>PF13245 AAA_19: Part of AAA domain
Probab=93.09 E-value=0.045 Score=31.28 Aligned_cols=26 Identities=31% Similarity=0.447 Sum_probs=17.0
Q ss_pred HHHHhCCCCEEEEeeccCCCccceeec
Q psy15017 61 VAGSLEGYNATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 61 v~~~~~g~n~~v~ayG~t~sGKt~T~~ 87 (97)
|...+. .+..+..-|..|||||+|+.
T Consensus 3 v~~al~-~~~~~vv~g~pGtGKT~~~~ 28 (76)
T PF13245_consen 3 VRRALA-GSPLFVVQGPPGTGKTTTLA 28 (76)
T ss_pred HHHHHh-hCCeEEEECCCCCCHHHHHH
Confidence 344445 33334457999999998863
No 47
>PRK12377 putative replication protein; Provisional
Probab=93.00 E-value=0.14 Score=35.67 Aligned_cols=49 Identities=20% Similarity=0.228 Sum_probs=30.7
Q ss_pred eeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCccceeec
Q psy15017 37 FTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 37 F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T~~ 87 (97)
.+||........|..++.. +...++.+..+. ..++-+|.+|+||||.+.
T Consensus 71 ~tFdnf~~~~~~~~~a~~~-a~~~a~~~~~~~-~~l~l~G~~GtGKThLa~ 119 (248)
T PRK12377 71 CSFANYQVQNDGQRYALSQ-AKSIADELMTGC-TNFVFSGKPGTGKNHLAA 119 (248)
T ss_pred CCcCCcccCChhHHHHHHH-HHHHHHHHHhcC-CeEEEECCCCCCHHHHHH
Confidence 3566444334466666654 444555555544 356778999999999763
No 48
>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=92.81 E-value=0.085 Score=33.51 Aligned_cols=19 Identities=37% Similarity=0.389 Sum_probs=14.4
Q ss_pred CEEEEeeccCCCccceeec
Q psy15017 69 NATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~T~~ 87 (97)
...++..+.||||||++|.
T Consensus 25 ~~~~ll~~~tGsGKT~~~~ 43 (184)
T PF04851_consen 25 ERRVLLNAPTGSGKTIIAL 43 (184)
T ss_dssp CSEEEEEESTTSSHHHHHH
T ss_pred CCCEEEEECCCCCcChhhh
Confidence 3344456899999999885
No 49
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=92.68 E-value=0.16 Score=35.32 Aligned_cols=49 Identities=29% Similarity=0.178 Sum_probs=29.8
Q ss_pred eeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 35 KSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 35 ~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
++|.+..+-.....+...+.... .+++.+-.+.| ++-||..|+||||-.
T Consensus 74 k~~~~~d~~~~~~~~~~~l~~~~-~~~~~~~~~~n--l~l~G~~G~GKThLa 122 (254)
T COG1484 74 KTFEEFDFEFQPGIDKKALEDLA-SLVEFFERGEN--LVLLGPPGVGKTHLA 122 (254)
T ss_pred CCcccccccCCcchhHHHHHHHH-HHHHHhccCCc--EEEECCCCCcHHHHH
Confidence 45555444444456777776643 34444444444 556999999999965
No 50
>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=92.28 E-value=0.078 Score=40.27 Aligned_cols=28 Identities=36% Similarity=0.366 Sum_probs=22.0
Q ss_pred HHHHHhCCCCEEEEeeccCCCccceeec
Q psy15017 60 LVAGSLEGYNATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 60 ~v~~~~~g~n~~v~ayG~t~sGKt~T~~ 87 (97)
.+..++...++.++..|.||||||.||.
T Consensus 233 ~l~~~~~~~~GlilitGptGSGKTTtL~ 260 (486)
T TIGR02533 233 RFERLIRRPHGIILVTGPTGSGKTTTLY 260 (486)
T ss_pred HHHHHHhcCCCEEEEEcCCCCCHHHHHH
Confidence 4455666666678888999999999984
No 51
>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=92.09 E-value=0.14 Score=37.23 Aligned_cols=37 Identities=14% Similarity=0.348 Sum_probs=27.8
Q ss_pred CCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 46 ADVQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 46 ~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
+..|+.+|+.++. .+.......+|.-|..|+||||.+
T Consensus 3 n~eQ~~~~~~v~~----~~~~~~~~~~fv~G~~GtGKs~l~ 39 (364)
T PF05970_consen 3 NEEQRRVFDTVIE----AIENEEGLNFFVTGPAGTGKSFLI 39 (364)
T ss_pred CHHHHHHHHHHHH----HHHccCCcEEEEEcCCCCChhHHH
Confidence 4579999998654 333345567788999999999975
No 52
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=92.06 E-value=0.13 Score=38.47 Aligned_cols=50 Identities=22% Similarity=0.396 Sum_probs=30.9
Q ss_pred CeeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCccceeec
Q psy15017 34 DKSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 34 ~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T~~ 87 (97)
+..|+||.-.- ..++...|..... +.+. -..+| .++-||.+|+||||-+.
T Consensus 99 ~~~~tFdnFv~-g~~n~~a~~~~~~-~~~~-~~~~n-~l~lyG~~G~GKTHLl~ 148 (440)
T PRK14088 99 NPDYTFENFVV-GPGNSFAYHAALE-VAKN-PGRYN-PLFIYGGVGLGKTHLLQ 148 (440)
T ss_pred CCCCccccccc-CCchHHHHHHHHH-HHhC-cCCCC-eEEEEcCCCCcHHHHHH
Confidence 35678876553 3456666654322 2221 11245 48899999999999873
No 53
>PRK07952 DNA replication protein DnaC; Validated
Probab=92.02 E-value=0.25 Score=34.36 Aligned_cols=50 Identities=16% Similarity=0.153 Sum_probs=29.9
Q ss_pred eeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 35 KSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 35 ~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
...+||.-......|..++..+ ...++....+. ..++-+|.+|+||||.+
T Consensus 67 ~~~tFdnf~~~~~~q~~al~~a-~~~~~~~~~~~-~~~~l~G~~GtGKThLa 116 (244)
T PRK07952 67 QNCSFENYRVECEGQMNALSKA-RQYVEEFDGNI-ASFIFSGKPGTGKNHLA 116 (244)
T ss_pred cCCccccccCCCchHHHHHHHH-HHHHHhhccCC-ceEEEECCCCCCHHHHH
Confidence 3456664433344566666553 33344443333 35778899999999976
No 54
>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=91.97 E-value=0.15 Score=37.49 Aligned_cols=50 Identities=22% Similarity=0.361 Sum_probs=28.2
Q ss_pred eeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCccceeec
Q psy15017 35 KSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 35 ~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T~~ 87 (97)
..|+||.-.. ...+...|... ..+.+.--..+| .++-||.+|+||||.+.
T Consensus 105 ~~~tfd~fi~-g~~n~~a~~~~-~~~~~~~~~~~n-~l~l~G~~G~GKThL~~ 154 (405)
T TIGR00362 105 PKYTFDNFVV-GKSNRLAHAAA-LAVAENPGKAYN-PLFIYGGVGLGKTHLLH 154 (405)
T ss_pred CCCccccccc-CCcHHHHHHHH-HHHHhCcCccCC-eEEEECCCCCcHHHHHH
Confidence 5677775332 34555555432 222222111233 46789999999999873
No 55
>PRK10436 hypothetical protein; Provisional
Probab=91.84 E-value=0.085 Score=39.88 Aligned_cols=28 Identities=39% Similarity=0.428 Sum_probs=22.2
Q ss_pred HHHHHhCCCCEEEEeeccCCCccceeec
Q psy15017 60 LVAGSLEGYNATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 60 ~v~~~~~g~n~~v~ayG~t~sGKt~T~~ 87 (97)
.+..++..-++.|+.-|.||||||.||.
T Consensus 209 ~l~~~~~~~~GliLvtGpTGSGKTTtL~ 236 (462)
T PRK10436 209 QFRQALQQPQGLILVTGPTGSGKTVTLY 236 (462)
T ss_pred HHHHHHHhcCCeEEEECCCCCChHHHHH
Confidence 4555666667788888999999999984
No 56
>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=91.69 E-value=0.1 Score=37.76 Aligned_cols=29 Identities=34% Similarity=0.431 Sum_probs=21.1
Q ss_pred HHHHHHhCCCCEEEEeeccCCCccceeec
Q psy15017 59 SLVAGSLEGYNATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 59 p~v~~~~~g~n~~v~ayG~t~sGKt~T~~ 87 (97)
+.+..++.-....++..|.||||||.||.
T Consensus 112 ~~l~~~~~~~~g~ili~G~tGSGKTT~l~ 140 (343)
T TIGR01420 112 PVLRELAERPRGLILVTGPTGSGKSTTLA 140 (343)
T ss_pred HHHHHHHhhcCcEEEEECCCCCCHHHHHH
Confidence 34555554445667788999999999983
No 57
>PRK08727 hypothetical protein; Validated
Probab=91.52 E-value=0.077 Score=36.26 Aligned_cols=18 Identities=28% Similarity=0.274 Sum_probs=15.2
Q ss_pred EEEEeeccCCCccceeec
Q psy15017 70 ATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 70 ~~v~ayG~t~sGKt~T~~ 87 (97)
..++-||.+|+||||-+.
T Consensus 42 ~~l~l~G~~G~GKThL~~ 59 (233)
T PRK08727 42 DWLYLSGPAGTGKTHLAL 59 (233)
T ss_pred CeEEEECCCCCCHHHHHH
Confidence 358889999999999763
No 58
>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=91.51 E-value=0.084 Score=40.72 Aligned_cols=28 Identities=32% Similarity=0.445 Sum_probs=22.1
Q ss_pred HHHHHhCCCCEEEEeeccCCCccceeec
Q psy15017 60 LVAGSLEGYNATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 60 ~v~~~~~g~n~~v~ayG~t~sGKt~T~~ 87 (97)
.+..++..-++.|+.-|.||||||.||.
T Consensus 307 ~l~~~~~~~~Glilv~G~tGSGKTTtl~ 334 (564)
T TIGR02538 307 LFLEAIHKPQGMVLVTGPTGSGKTVSLY 334 (564)
T ss_pred HHHHHHHhcCCeEEEECCCCCCHHHHHH
Confidence 4556666667788888999999999984
No 59
>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=91.43 E-value=0.25 Score=32.97 Aligned_cols=47 Identities=17% Similarity=0.256 Sum_probs=27.9
Q ss_pred CeeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 34 DKSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 34 ~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
+..++||.... ..+....+..- . .+.......++-||.+|+||||.+
T Consensus 9 ~~~~~~~~~~~--~~~~~~~~~l~-~---~~~~~~~~~lll~G~~G~GKT~la 55 (226)
T TIGR03420 9 PDDPTFDNFYA--GGNAELLAALR-Q---LAAGKGDRFLYLWGESGSGKSHLL 55 (226)
T ss_pred CCchhhcCcCc--CCcHHHHHHHH-H---HHhcCCCCeEEEECCCCCCHHHHH
Confidence 34456664442 23444444321 1 122455667889999999999876
No 60
>PF00063 Myosin_head: Myosin head (motor domain); InterPro: IPR001609 Muscle contraction is caused by sliding between the thick and thin filaments of the myofibril. Myosin is a major component of thick filaments and exists as a hexamer of 2 heavy chains [], 2 alkali light chains, and 2 regulatory light chains. The heavy chain can be subdivided into the N-terminal globular head and the C-terminal coiled-coil rod-like tail, although some forms have a globular region in their C-terminal. There are many cell-specific isoforms of myosin heavy chains, coded for by a multi-gene family []. Myosin interacts with actin to convert chemical energy, in the form of ATP, to mechanical energy []. The 3-D structure of the head portion of myosin has been determined [] and a model for actin-myosin complex has been constructed []. The globular head is well conserved, some highly-conserved regions possibly relating to functional and structural domains []. The rod-like tail starts with an invariant proline residue, and contains many repeats of a 28 residue region, interrupted at 4 regularly-spaced points known as skip residues. Although the sequence of the tail is not well conserved, the chemical character is, hydrophobic, charged and skip residues occuring in a highly ordered and repeated fashion [].; GO: 0003774 motor activity, 0005524 ATP binding, 0016459 myosin complex; PDB: 1LKX_A 2V26_A 2BKI_A 3L9I_A 2BKH_A 2X51_A 2VB6_A 2VAS_A 1OE9_A 1W8J_A ....
Probab=91.37 E-value=0.16 Score=39.91 Aligned_cols=37 Identities=32% Similarity=0.424 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHHHHHh-CCCCEEEEeeccCCCccceee
Q psy15017 49 QTTIYELCAASLVAGSL-EGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 49 q~~v~~~~~~p~v~~~~-~g~n~~v~ayG~t~sGKt~T~ 86 (97)
...||.- +......++ .+.|.||+-.|.+|||||.+.
T Consensus 65 ~PHif~~-a~~A~~~m~~~~~~Q~IiisGeSGsGKTe~~ 102 (689)
T PF00063_consen 65 PPHIFAV-AQRAYRQMLRTRQNQSIIISGESGSGKTETS 102 (689)
T ss_dssp -SSHHHH-HHHHHHHHHHHTSEEEEEEEESTTSSHHHHH
T ss_pred cCccchh-hhcccccccccccccceeeccccccccccch
Confidence 3445543 333444444 588999999999999999873
No 61
>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=91.24 E-value=0.12 Score=36.20 Aligned_cols=28 Identities=43% Similarity=0.468 Sum_probs=19.9
Q ss_pred HHHHHhCCCCEEEEeeccCCCccceeec
Q psy15017 60 LVAGSLEGYNATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 60 ~v~~~~~g~n~~v~ayG~t~sGKt~T~~ 87 (97)
.+..++......++..|.+|||||.||.
T Consensus 71 ~l~~~~~~~~GlilisG~tGSGKTT~l~ 98 (264)
T cd01129 71 IFRKLLEKPHGIILVTGPTGSGKTTTLY 98 (264)
T ss_pred HHHHHHhcCCCEEEEECCCCCcHHHHHH
Confidence 3455555445556677999999999883
No 62
>PRK08181 transposase; Validated
Probab=91.07 E-value=0.32 Score=34.26 Aligned_cols=19 Identities=37% Similarity=0.714 Sum_probs=15.2
Q ss_pred CCCCEEEEeeccCCCccceee
Q psy15017 66 EGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 66 ~g~n~~v~ayG~t~sGKt~T~ 86 (97)
.+.| ++-+|.+|+||||-+
T Consensus 105 ~~~n--lll~Gp~GtGKTHLa 123 (269)
T PRK08181 105 KGAN--LLLFGPPGGGKSHLA 123 (269)
T ss_pred cCce--EEEEecCCCcHHHHH
Confidence 4444 677999999999976
No 63
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=91.04 E-value=0.12 Score=34.48 Aligned_cols=27 Identities=26% Similarity=0.326 Sum_probs=17.8
Q ss_pred HHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 60 LVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 60 ~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
.+..++...+..++.-|..|+||||+|
T Consensus 9 a~~~~l~~~~~~~~l~G~aGtGKT~~l 35 (196)
T PF13604_consen 9 AVRAILTSGDRVSVLQGPAGTGKTTLL 35 (196)
T ss_dssp HHHHHHHCTCSEEEEEESTTSTHHHHH
T ss_pred HHHHHHhcCCeEEEEEECCCCCHHHHH
Confidence 344555444333445799999999987
No 64
>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=91.01 E-value=0.1 Score=36.14 Aligned_cols=18 Identities=50% Similarity=0.671 Sum_probs=14.1
Q ss_pred CEEEEeeccCCCccceee
Q psy15017 69 NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~T~ 86 (97)
.+.++.-|.+|||||.+|
T Consensus 127 ~~~ili~G~tGSGKTT~l 144 (270)
T PF00437_consen 127 RGNILISGPTGSGKTTLL 144 (270)
T ss_dssp TEEEEEEESTTSSHHHHH
T ss_pred ceEEEEECCCccccchHH
Confidence 344556699999999887
No 65
>PRK08939 primosomal protein DnaI; Reviewed
Probab=90.96 E-value=0.26 Score=35.27 Aligned_cols=50 Identities=16% Similarity=0.175 Sum_probs=30.0
Q ss_pred eeccEEecCCCcHHHHHHHHHHHHHHHHhCC-CCEEEEeeccCCCccceeec
Q psy15017 37 FTFDYVFDMADVQTTIYELCAASLVAGSLEG-YNATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 37 F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g-~n~~v~ayG~t~sGKt~T~~ 87 (97)
-+|+.+-.....+..++.. +...++....| ....++-||.+|+||||-+.
T Consensus 124 atf~~~~~~~~~~~~~~~~-~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~ 174 (306)
T PRK08939 124 ASLADIDLDDRDRLDALMA-ALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLA 174 (306)
T ss_pred CcHHHhcCCChHHHHHHHH-HHHHHHHhhccCCCCeEEEECCCCCCHHHHHH
Confidence 4454443333355566654 34555554432 23357889999999999773
No 66
>smart00242 MYSc Myosin. Large ATPases. ATPase; molecular motor. Muscle contraction consists of a cyclical interaction between myosin and actin. The core of the myosin structure is similar in fold to that of kinesin.
Probab=90.92 E-value=0.29 Score=38.65 Aligned_cols=37 Identities=24% Similarity=0.441 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHHHHh-CCCCEEEEeeccCCCccceee
Q psy15017 49 QTTIYELCAASLVAGSL-EGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 49 q~~v~~~~~~p~v~~~~-~g~n~~v~ayG~t~sGKt~T~ 86 (97)
...+|.- +......++ .+.|.||+.-|.+|||||.|.
T Consensus 72 ~PHifav-A~~Ay~~m~~~~~~QsIiisGESGaGKTe~~ 109 (677)
T smart00242 72 PPHVFAI-ADNAYRNMLNDKENQSIIISGESGAGKTENT 109 (677)
T ss_pred CCCHHHH-HHHHHHHHHhcCCCceEEEecCCCCcchHHH
Confidence 3556643 333344444 688999999999999999874
No 67
>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=90.90 E-value=0.22 Score=35.02 Aligned_cols=20 Identities=35% Similarity=0.400 Sum_probs=17.0
Q ss_pred CCCEEEEeeccCCCccceee
Q psy15017 67 GYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 67 g~n~~v~ayG~t~sGKt~T~ 86 (97)
.-+.+|.-+|..|||||+-|
T Consensus 18 ~~~~~IgL~G~WGsGKSs~l 37 (325)
T PF07693_consen 18 DDPFVIGLYGEWGSGKSSFL 37 (325)
T ss_pred CCCeEEEEECCCCCCHHHHH
Confidence 55778888999999999866
No 68
>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=90.88 E-value=0.23 Score=32.69 Aligned_cols=17 Identities=35% Similarity=0.694 Sum_probs=13.7
Q ss_pred EEEEeeccCCCccceee
Q psy15017 70 ATILAYGQTGSGKTYTM 86 (97)
Q Consensus 70 ~~v~ayG~t~sGKt~T~ 86 (97)
-.++-+|.+|+||||..
T Consensus 48 ~~l~l~G~~G~GKThLa 64 (178)
T PF01695_consen 48 ENLILYGPPGTGKTHLA 64 (178)
T ss_dssp -EEEEEESTTSSHHHHH
T ss_pred eEEEEEhhHhHHHHHHH
Confidence 35777999999999965
No 69
>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=90.88 E-value=0.14 Score=37.48 Aligned_cols=24 Identities=25% Similarity=0.452 Sum_probs=18.7
Q ss_pred HHhCCCCEEEEeeccCCCccceee
Q psy15017 63 GSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 63 ~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
.++.-....++..|.||||||.||
T Consensus 128 ~~~~~~~glilI~GpTGSGKTTtL 151 (358)
T TIGR02524 128 DAIAPQEGIVFITGATGSGKSTLL 151 (358)
T ss_pred HHHhccCCEEEEECCCCCCHHHHH
Confidence 344445677888899999999988
No 70
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=90.83 E-value=0.2 Score=37.37 Aligned_cols=52 Identities=25% Similarity=0.338 Sum_probs=30.8
Q ss_pred CCeeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCccceeec
Q psy15017 33 ADKSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 33 ~~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T~~ 87 (97)
-+..|+||..... .+++..+.... -+...-.+...-+|-||.+|+||||-|.
T Consensus 80 l~~~ytFdnFv~g-~~N~~A~aa~~--~va~~~g~~~nplfi~G~~GlGKTHLl~ 131 (408)
T COG0593 80 LNPKYTFDNFVVG-PSNRLAYAAAK--AVAENPGGAYNPLFIYGGVGLGKTHLLQ 131 (408)
T ss_pred CCCCCchhheeeC-CchHHHHHHHH--HHHhccCCcCCcEEEECCCCCCHHHHHH
Confidence 3567888865543 35555554321 1112112223458889999999999883
No 71
>PRK06835 DNA replication protein DnaC; Validated
Probab=90.62 E-value=0.22 Score=36.09 Aligned_cols=28 Identities=29% Similarity=0.534 Sum_probs=20.1
Q ss_pred HHHHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 58 ASLVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 58 ~p~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
...++.+-... ..++-||.+|+||||-+
T Consensus 173 ~~f~~~f~~~~-~~Lll~G~~GtGKThLa 200 (329)
T PRK06835 173 KNFIENFDKNN-ENLLFYGNTGTGKTFLS 200 (329)
T ss_pred HHHHHHHhccC-CcEEEECCCCCcHHHHH
Confidence 34555554443 45888999999999966
No 72
>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=90.53 E-value=0.15 Score=37.57 Aligned_cols=26 Identities=35% Similarity=0.354 Sum_probs=18.6
Q ss_pred HHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 60 LVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 60 ~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
+++.++. .++.++..|.||||||.||
T Consensus 141 ~~~~l~~-~~GlilI~G~TGSGKTT~l 166 (372)
T TIGR02525 141 LFNSLLP-AAGLGLICGETGSGKSTLA 166 (372)
T ss_pred HHHHHHh-cCCEEEEECCCCCCHHHHH
Confidence 3444443 3456777899999999998
No 73
>PRK06526 transposase; Provisional
Probab=90.47 E-value=0.15 Score=35.47 Aligned_cols=16 Identities=31% Similarity=0.434 Sum_probs=13.9
Q ss_pred EEeeccCCCccceeec
Q psy15017 72 ILAYGQTGSGKTYTMG 87 (97)
Q Consensus 72 v~ayG~t~sGKt~T~~ 87 (97)
++-+|.+|+||||.+.
T Consensus 101 lll~Gp~GtGKThLa~ 116 (254)
T PRK06526 101 VVFLGPPGTGKTHLAI 116 (254)
T ss_pred EEEEeCCCCchHHHHH
Confidence 6779999999999863
No 74
>cd01377 MYSc_type_II Myosin motor domain, type II myosins. Myosin II mediates cortical contraction in cell motility, and is the motor in smooth and skeletal muscle. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of force. Upon ATP binding, the myosin head dissociates from an actin filament. ATP hydro
Probab=90.36 E-value=0.35 Score=38.39 Aligned_cols=37 Identities=30% Similarity=0.460 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHHHHh-CCCCEEEEeeccCCCccceee
Q psy15017 49 QTTIYELCAASLVAGSL-EGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 49 q~~v~~~~~~p~v~~~~-~g~n~~v~ayG~t~sGKt~T~ 86 (97)
...+|.- +......++ .+.|.||+.-|.+|||||.+.
T Consensus 71 ~PHiyai-A~~Ay~~m~~~~~~QsIiiSGESGAGKTes~ 108 (693)
T cd01377 71 PPHIFAI-ADNAYRSMLQDRENQSILITGESGAGKTENT 108 (693)
T ss_pred CCCHHHH-HHHHHHHHHhcCCCceEEEEcCCCCCchHHH
Confidence 4456643 333444554 589999999999999999763
No 75
>cd01384 MYSc_type_XI Myosin motor domain, plant-specific type XI myosin, involved in organelle transport. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of force. Upon ATP binding, the myosin head dissociates from an actin filament. ATP hydrolysis causes the head to pivot and associate with a new act
Probab=90.27 E-value=0.38 Score=38.09 Aligned_cols=36 Identities=31% Similarity=0.542 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHHHHh-CCCCEEEEeeccCCCccceee
Q psy15017 50 TTIYELCAASLVAGSL-EGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 50 ~~v~~~~~~p~v~~~~-~g~n~~v~ayG~t~sGKt~T~ 86 (97)
..+|.- +......+. .+.|.||+.-|.+|||||.+.
T Consensus 69 PHifai-A~~Ay~~m~~~~~~QsIiisGESGaGKTe~~ 105 (674)
T cd01384 69 PHVFAI-ADAAYRAMINEGKSQSILVSGESGAGKTETT 105 (674)
T ss_pred CCHHHH-HHHHHHHHHHcCCCceEEEECCCCCCchhHH
Confidence 445543 333344444 588999999999999999864
No 76
>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=90.22 E-value=0.17 Score=36.09 Aligned_cols=28 Identities=32% Similarity=0.412 Sum_probs=19.1
Q ss_pred HHHHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 58 ASLVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 58 ~p~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
..++..++.+.. .++.-|.+|||||.+|
T Consensus 122 ~~~L~~~v~~~~-~ilI~G~tGSGKTTll 149 (299)
T TIGR02782 122 RDVLREAVLARK-NILVVGGTGSGKTTLA 149 (299)
T ss_pred HHHHHHHHHcCC-eEEEECCCCCCHHHHH
Confidence 344555555443 4556799999999886
No 77
>cd00124 MYSc Myosin motor domain. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of force. Upon ATP binding, the myosin head dissociates from an actin filament. ATP hydrolysis causes the head to pivot and associate with a new actin subunit. The release of Pi causes the head to pivot and move the fila
Probab=90.21 E-value=0.37 Score=38.06 Aligned_cols=36 Identities=25% Similarity=0.454 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHHHh-CCCCEEEEeeccCCCccceee
Q psy15017 50 TTIYELCAASLVAGSL-EGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 50 ~~v~~~~~~p~v~~~~-~g~n~~v~ayG~t~sGKt~T~ 86 (97)
..+|.- +......++ .+.|.||+.-|.+|||||.+.
T Consensus 67 PHifav-A~~Ay~~m~~~~~~QsIiisGESGaGKTe~~ 103 (679)
T cd00124 67 PHVFAI-ADRAYRNMLRDRRNQSIIISGESGAGKTENT 103 (679)
T ss_pred CCHHHH-HHHHHHHHHhcCCCceEEEecCCCCCchHHH
Confidence 455643 344455555 589999999999999999764
No 78
>PHA00729 NTP-binding motif containing protein
Probab=90.20 E-value=0.34 Score=33.42 Aligned_cols=29 Identities=24% Similarity=0.328 Sum_probs=21.6
Q ss_pred HHHHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 58 ASLVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 58 ~p~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
..+++.+..+.-..|+-+|.+|+||||-.
T Consensus 6 k~~~~~l~~~~f~nIlItG~pGvGKT~LA 34 (226)
T PHA00729 6 KKIVSAYNNNGFVSAVIFGKQGSGKTTYA 34 (226)
T ss_pred HHHHHHHhcCCeEEEEEECCCCCCHHHHH
Confidence 34566666655557889999999999854
No 79
>cd01383 MYSc_type_VIII Myosin motor domain, plant-specific type VIII myosins, a subgroup which has been associated with endocytosis, cytokinesis, cell-to-cell coupling and gating at plasmodesmata. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of force. Upon ATP binding, the myosin head dissociates f
Probab=90.13 E-value=0.43 Score=37.82 Aligned_cols=36 Identities=28% Similarity=0.501 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHHHh-CCCCEEEEeeccCCCccceee
Q psy15017 50 TTIYELCAASLVAGSL-EGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 50 ~~v~~~~~~p~v~~~~-~g~n~~v~ayG~t~sGKt~T~ 86 (97)
..+|.- +......++ .+.|.||+.-|.+|||||.|.
T Consensus 73 PHifai-A~~Ay~~m~~~~~~QsIiisGESGaGKTe~~ 109 (677)
T cd01383 73 PHVYAI-ADTAYNEMMRDEVNQSIIISGESGAGKTETA 109 (677)
T ss_pred CCHHHH-HHHHHHHHHHcCCCceEEEecCCCCCcchHH
Confidence 445543 333444554 589999999999999999864
No 80
>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=90.05 E-value=0.14 Score=33.74 Aligned_cols=23 Identities=43% Similarity=0.590 Sum_probs=17.5
Q ss_pred HhCCCCEEEEeeccCCCccceee
Q psy15017 64 SLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 64 ~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
+..+.+..++-||..|+|||..|
T Consensus 15 l~~~~~~~~~l~G~rg~GKTsLl 37 (234)
T PF01637_consen 15 LESGPSQHILLYGPRGSGKTSLL 37 (234)
T ss_dssp HHH--SSEEEEEESTTSSHHHHH
T ss_pred HHhhcCcEEEEEcCCcCCHHHHH
Confidence 34566778899999999999866
No 81
>cd01378 MYSc_type_I Myosin motor domain, type I myosins. Myosin I generates movement at the leading edge in cell motility, and class I myosins have been implicated in phagocytosis and vesicle transport. Myosin I, an unconventional myosin, does not form dimers. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 picon
Probab=90.01 E-value=0.42 Score=37.81 Aligned_cols=36 Identities=31% Similarity=0.438 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHHHh-CCCCEEEEeeccCCCccceee
Q psy15017 50 TTIYELCAASLVAGSL-EGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 50 ~~v~~~~~~p~v~~~~-~g~n~~v~ayG~t~sGKt~T~ 86 (97)
..+|.- +......++ .+.|.||+.-|.+|||||.+.
T Consensus 67 PHifai-A~~Ay~~m~~~~~~QsIiisGESGaGKTe~~ 103 (674)
T cd01378 67 PHIYAL-ADNAYRSMKSENENQCVIISGESGAGKTEAA 103 (674)
T ss_pred CCHHHH-HHHHHHHHHHcCCCceEEEEcCCCCCcchHH
Confidence 446643 333344444 589999999999999999864
No 82
>cd01382 MYSc_type_VI Myosin motor domain, type VI myosins. Myosin VI is a monomeric myosin, which moves towards the minus-end of actin filaments, in contrast to most other myosins. It has been implicated in endocytosis, secretion, and cell migration. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the minus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of
Probab=90.01 E-value=0.37 Score=38.42 Aligned_cols=36 Identities=19% Similarity=0.342 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHHHh-CCCCEEEEeeccCCCccceee
Q psy15017 50 TTIYELCAASLVAGSL-EGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 50 ~~v~~~~~~p~v~~~~-~g~n~~v~ayG~t~sGKt~T~ 86 (97)
..+|.- +......++ .+.|.||+.-|.+|||||.|.
T Consensus 72 PHifai-A~~Ay~~m~~~~~~QsIiisGESGaGKTes~ 108 (717)
T cd01382 72 PHVFAI-ADKAYRDMKVLKMSQSIIVSGESGAGKTENT 108 (717)
T ss_pred CcHHHH-HHHHHHHHHhcCCCCeEEEecCCCCChhHHH
Confidence 345543 333444444 688999999999999999864
No 83
>cd01381 MYSc_type_VII Myosin motor domain, type VII myosins. Myosins in this group have been associated with functions in sensory systems such as vision and hearing. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of force. Upon ATP binding, the myosin head dissociates from an actin filament. ATP hydr
Probab=89.90 E-value=0.45 Score=37.66 Aligned_cols=37 Identities=24% Similarity=0.402 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHHHHh-CCCCEEEEeeccCCCccceee
Q psy15017 49 QTTIYELCAASLVAGSL-EGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 49 q~~v~~~~~~p~v~~~~-~g~n~~v~ayG~t~sGKt~T~ 86 (97)
...+|.- +......++ .+.|.||+.-|.+|||||.+.
T Consensus 66 ~PHifav-A~~Ay~~m~~~~~~QsIiisGESGaGKTes~ 103 (671)
T cd01381 66 PPHIFAI-SDNAYTNMQREKKNQCIIISGESGAGKTEST 103 (671)
T ss_pred CCCHHHH-HHHHHHHHHHcCCCceEEEEcCCCCCeehHH
Confidence 3445543 333444554 589999999999999999864
No 84
>COG5008 PilU Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=89.87 E-value=0.28 Score=35.32 Aligned_cols=28 Identities=29% Similarity=0.396 Sum_probs=20.9
Q ss_pred HHHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 59 SLVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 59 p~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
++++++.--.-+.|+.-|.|||||+.||
T Consensus 117 evlk~la~~kRGLviiVGaTGSGKSTtm 144 (375)
T COG5008 117 EVLKDLALAKRGLVIIVGATGSGKSTTM 144 (375)
T ss_pred HHHHHhhcccCceEEEECCCCCCchhhH
Confidence 4555555455566777799999999998
No 85
>cd01385 MYSc_type_IX Myosin motor domain, type IX myosins. Myosin IX is a processive single-headed motor, which might play a role in signalling. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of force. Upon ATP binding, the myosin head dissociates from an actin filament. ATP hydrolysis causes the hea
Probab=89.77 E-value=0.42 Score=37.93 Aligned_cols=36 Identities=31% Similarity=0.423 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHHHHh-CCCCEEEEeeccCCCccceee
Q psy15017 50 TTIYELCAASLVAGSL-EGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 50 ~~v~~~~~~p~v~~~~-~g~n~~v~ayG~t~sGKt~T~ 86 (97)
..+|.- +......++ .+.|.||+.-|.+|||||.|.
T Consensus 75 PHiy~i-A~~Ay~~m~~~~~~QsIiisGESGAGKTet~ 111 (692)
T cd01385 75 PHIFAI-ADVAYYNMLRKKVNQCIVISGESGSGKTEST 111 (692)
T ss_pred CCHHHH-HHHHHHHHHhcCCCceEEEecCCCCCchHHH
Confidence 445543 333344444 588999999999999999874
No 86
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=89.68 E-value=0.24 Score=35.71 Aligned_cols=27 Identities=33% Similarity=0.485 Sum_probs=17.8
Q ss_pred HHHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 59 SLVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 59 p~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
.++..++.+.. .++..|.+|||||.+|
T Consensus 139 ~~L~~~v~~~~-~ilI~G~tGSGKTTll 165 (319)
T PRK13894 139 EAIIAAVRAHR-NILVIGGTGSGKTTLV 165 (319)
T ss_pred HHHHHHHHcCC-eEEEECCCCCCHHHHH
Confidence 34555555443 3445599999999776
No 87
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=89.67 E-value=0.34 Score=32.59 Aligned_cols=50 Identities=22% Similarity=0.337 Sum_probs=28.9
Q ss_pred CCCeeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 32 GADKSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 32 ~~~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
..+..++||.... ..++..... +..+... ......++-+|.+|+||||-+
T Consensus 10 ~~~~~~~~d~f~~--~~~~~~~~~-l~~~~~~--~~~~~~~~l~G~~G~GKT~La 59 (227)
T PRK08903 10 GPPPPPTFDNFVA--GENAELVAR-LRELAAG--PVADRFFYLWGEAGSGRSHLL 59 (227)
T ss_pred CCCChhhhccccc--CCcHHHHHH-HHHHHhc--cCCCCeEEEECCCCCCHHHHH
Confidence 3456678887662 222333322 2222221 234456788999999999865
No 88
>cd01387 MYSc_type_XV Myosin motor domain, type XV myosins. In vertebrates, myosin XV appears to be expressed in sensory tissue and play a role in hearing. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of force. Upon ATP binding, the myosin head dissociates from an actin filament. ATP hydrolysis caus
Probab=89.53 E-value=0.5 Score=37.44 Aligned_cols=36 Identities=28% Similarity=0.418 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHHh-CCCCEEEEeeccCCCccceee
Q psy15017 50 TTIYELCAASLVAGSL-EGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 50 ~~v~~~~~~p~v~~~~-~g~n~~v~ayG~t~sGKt~T~ 86 (97)
..+|.- +......++ .+.|.||+.-|.+|||||.+.
T Consensus 68 PHifav-A~~Ay~~m~~~~~~QsIiisGESGaGKTe~~ 104 (677)
T cd01387 68 PHLFAI-ANLAFAKMLDAKQNQCVIISGESGSGKTEAT 104 (677)
T ss_pred CCHHHH-HHHHHHHHHhcCCCceEEEEcCCCCCeehHH
Confidence 446643 333444554 688999999999999999874
No 89
>cd01380 MYSc_type_V Myosin motor domain, type V myosins. Myosins V transport a variety of intracellular cargo processively along actin filaments, such as membraneous organelles and mRNA. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of force. Upon ATP binding, the myosin head dissociates from an act
Probab=89.52 E-value=0.45 Score=37.77 Aligned_cols=36 Identities=25% Similarity=0.439 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHHHh-CCCCEEEEeeccCCCccceee
Q psy15017 50 TTIYELCAASLVAGSL-EGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 50 ~~v~~~~~~p~v~~~~-~g~n~~v~ayG~t~sGKt~T~ 86 (97)
..+|.- +......++ .+.|.||+.-|.+|||||.+.
T Consensus 67 PHifai-A~~Ay~~m~~~~~~QsIiiSGESGaGKTes~ 103 (691)
T cd01380 67 PHIFAI-AEEAYKQMTRDEKNQSIIVSGESGAGKTVSA 103 (691)
T ss_pred CCHHHH-HHHHHHHHHhcCCCceEEEEcCCCCCchHHH
Confidence 445643 333344444 699999999999999999763
No 90
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=89.41 E-value=0.28 Score=35.53 Aligned_cols=27 Identities=22% Similarity=0.289 Sum_probs=17.4
Q ss_pred HHHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 59 SLVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 59 p~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
.++..+..+... ++.-|.||||||.+|
T Consensus 151 ~~L~~~v~~~~n-ili~G~tgSGKTTll 177 (332)
T PRK13900 151 EFLEHAVISKKN-IIISGGTSTGKTTFT 177 (332)
T ss_pred HHHHHHHHcCCc-EEEECCCCCCHHHHH
Confidence 344444444332 455699999999887
No 91
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=89.38 E-value=0.26 Score=35.70 Aligned_cols=27 Identities=33% Similarity=0.470 Sum_probs=17.9
Q ss_pred HHHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 59 SLVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 59 p~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
.++..++.... .++.-|.+|||||.+|
T Consensus 135 ~~L~~~v~~~~-nilI~G~tGSGKTTll 161 (323)
T PRK13833 135 SVIRSAIDSRL-NIVISGGTGSGKTTLA 161 (323)
T ss_pred HHHHHHHHcCC-eEEEECCCCCCHHHHH
Confidence 34444444333 3556799999999887
No 92
>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=89.31 E-value=0.26 Score=33.76 Aligned_cols=22 Identities=36% Similarity=0.508 Sum_probs=16.1
Q ss_pred hCCCCEEEEeeccCCCccceee
Q psy15017 65 LEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 65 ~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
+......+.-+|.+|+|||..+
T Consensus 39 ~~~~~~~~~l~G~~G~GKTtl~ 60 (269)
T TIGR03015 39 LSQREGFILITGEVGAGKTTLI 60 (269)
T ss_pred HhcCCCEEEEEcCCCCCHHHHH
Confidence 3333445667899999999876
No 93
>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=89.19 E-value=0.31 Score=32.00 Aligned_cols=27 Identities=37% Similarity=0.425 Sum_probs=17.1
Q ss_pred HHHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 59 SLVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 59 p~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
+++...+... ..+.-.|.+|||||.+|
T Consensus 16 ~~l~~~v~~g-~~i~I~G~tGSGKTTll 42 (186)
T cd01130 16 AYLWLAVEAR-KNILISGGTGSGKTTLL 42 (186)
T ss_pred HHHHHHHhCC-CEEEEECCCCCCHHHHH
Confidence 4444444432 23445699999999876
No 94
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=89.02 E-value=0.29 Score=36.80 Aligned_cols=49 Identities=20% Similarity=0.316 Sum_probs=29.0
Q ss_pred eeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCccceeec
Q psy15017 36 SFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 36 ~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T~~ 87 (97)
.|+||..... .+++..|.. +..+.+.--..+| -++-||.+|+||||.|.
T Consensus 111 ~~tFdnFv~g-~~n~~A~~a-a~~~a~~~~~~~n-pl~i~G~~G~GKTHLl~ 159 (450)
T PRK14087 111 ENTFENFVIG-SSNEQAFIA-VQTVSKNPGISYN-PLFIYGESGMGKTHLLK 159 (450)
T ss_pred ccchhcccCC-CcHHHHHHH-HHHHHhCcCcccC-ceEEECCCCCcHHHHHH
Confidence 4788765543 345556643 3333221111234 47889999999999883
No 95
>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=88.84 E-value=0.42 Score=30.04 Aligned_cols=25 Identities=36% Similarity=0.542 Sum_probs=18.3
Q ss_pred HHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 60 LVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 60 ~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
+++.+++|.+ ++.-+.||+|||...
T Consensus 7 ~~~~i~~~~~--~li~aptGsGKT~~~ 31 (169)
T PF00270_consen 7 AIEAIISGKN--VLISAPTGSGKTLAY 31 (169)
T ss_dssp HHHHHHTTSE--EEEECSTTSSHHHHH
T ss_pred HHHHHHcCCC--EEEECCCCCccHHHH
Confidence 3445556666 667899999999765
No 96
>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=88.80 E-value=0.15 Score=35.21 Aligned_cols=20 Identities=35% Similarity=0.423 Sum_probs=14.8
Q ss_pred CCEEEEeeccCCCccceeec
Q psy15017 68 YNATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 68 ~n~~v~ayG~t~sGKt~T~~ 87 (97)
.+..++..|..|||||.||.
T Consensus 12 ~~~~~lV~a~AGSGKT~~l~ 31 (315)
T PF00580_consen 12 TEGPLLVNAGAGSGKTTTLL 31 (315)
T ss_dssp -SSEEEEEE-TTSSHHHHHH
T ss_pred CCCCEEEEeCCCCCchHHHH
Confidence 55567777889999999984
No 97
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=88.39 E-value=0.45 Score=33.55 Aligned_cols=21 Identities=33% Similarity=0.430 Sum_probs=15.9
Q ss_pred CCCCEEEEeeccCCCccceee
Q psy15017 66 EGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 66 ~g~n~~v~ayG~t~sGKt~T~ 86 (97)
.+....++-||..|+|||+++
T Consensus 33 ~~~~~~lll~Gp~GtGKT~la 53 (337)
T PRK12402 33 SPNLPHLLVQGPPGSGKTAAV 53 (337)
T ss_pred CCCCceEEEECCCCCCHHHHH
Confidence 344335778999999999876
No 98
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=88.21 E-value=0.32 Score=36.32 Aligned_cols=50 Identities=22% Similarity=0.385 Sum_probs=28.6
Q ss_pred CeeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 34 DKSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 34 ~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
+..|+||.-.. ...+...|... ..+.+.--..+| .++-||.+|+||||.+
T Consensus 116 ~~~~tfd~fv~-g~~n~~a~~~~-~~~~~~~~~~~~-~l~l~G~~G~GKThL~ 165 (450)
T PRK00149 116 NPKYTFDNFVV-GKSNRLAHAAA-LAVAENPGKAYN-PLFIYGGVGLGKTHLL 165 (450)
T ss_pred CCCCccccccc-CCCcHHHHHHH-HHHHhCcCccCC-eEEEECCCCCCHHHHH
Confidence 35677775332 23455555442 222222112234 4778999999999987
No 99
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=88.02 E-value=0.33 Score=38.26 Aligned_cols=46 Identities=37% Similarity=0.484 Sum_probs=32.3
Q ss_pred eeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCccceeec
Q psy15017 37 FTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 37 F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T~~ 87 (97)
|....-|.+..+|...++. +++.+-+|....+ .+|.+|||||+||-
T Consensus 2 f~~~~~~~~~~~Q~~ai~~----l~~~~~~~~~~~~-l~Gvtgs~kt~~~a 47 (655)
T TIGR00631 2 FKLHSPFQPAGDQPKAIAK----LVEGLTDGEKHQT-LLGVTGSGKTFTMA 47 (655)
T ss_pred ceeccCCCCChHHHHHHHH----HHHhhhcCCCcEE-EECCCCcHHHHHHH
Confidence 4445557788889888876 4555555642223 58999999999984
No 100
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=87.98 E-value=0.64 Score=38.47 Aligned_cols=20 Identities=40% Similarity=0.597 Sum_probs=16.8
Q ss_pred CCCEEEEeeccCCCccceee
Q psy15017 67 GYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 67 g~n~~v~ayG~t~sGKt~T~ 86 (97)
+-+.+++-||.+|+|||.|+
T Consensus 779 gpnnvLYIyG~PGTGKTATV 798 (1164)
T PTZ00112 779 GSNQILYISGMPGTGKTATV 798 (1164)
T ss_pred CCCceEEEECCCCCCHHHHH
Confidence 44567889999999999886
No 101
>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins. Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor
Probab=87.90 E-value=0.91 Score=28.66 Aligned_cols=18 Identities=33% Similarity=0.763 Sum_probs=14.3
Q ss_pred CCEEEEee-ccCCCcccee
Q psy15017 68 YNATILAY-GQTGSGKTYT 85 (97)
Q Consensus 68 ~n~~v~ay-G~t~sGKt~T 85 (97)
....|+++ |.+|+||+|.
T Consensus 51 ~KpLVlSfHG~tGtGKn~v 69 (127)
T PF06309_consen 51 RKPLVLSFHGWTGTGKNFV 69 (127)
T ss_pred CCCEEEEeecCCCCcHHHH
Confidence 34567777 9999999984
No 102
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=87.80 E-value=0.39 Score=35.04 Aligned_cols=27 Identities=37% Similarity=0.492 Sum_probs=17.4
Q ss_pred HHHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 59 SLVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 59 p~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
.++..+..... .++.-|.||||||.+|
T Consensus 153 ~~l~~~v~~~~-nilI~G~tGSGKTTll 179 (344)
T PRK13851 153 AFLHACVVGRL-TMLLCGPTGSGKTTMS 179 (344)
T ss_pred HHHHHHHHcCC-eEEEECCCCccHHHHH
Confidence 34444444332 3556799999999887
No 103
>PRK09183 transposase/IS protein; Provisional
Probab=87.65 E-value=0.39 Score=33.47 Aligned_cols=19 Identities=37% Similarity=0.494 Sum_probs=14.7
Q ss_pred CCCCEEEEeeccCCCccceee
Q psy15017 66 EGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 66 ~g~n~~v~ayG~t~sGKt~T~ 86 (97)
.|.| ++-+|.+|+||||-+
T Consensus 101 ~~~~--v~l~Gp~GtGKThLa 119 (259)
T PRK09183 101 RNEN--IVLLGPSGVGKTHLA 119 (259)
T ss_pred cCCe--EEEEeCCCCCHHHHH
Confidence 4554 456899999999976
No 104
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=87.62 E-value=0.65 Score=34.97 Aligned_cols=50 Identities=28% Similarity=0.355 Sum_probs=29.7
Q ss_pred CeeeeccEEecCCCcHHHHHHHHHHHHHHHH--hCC--CCEEEEeeccCCCccceee
Q psy15017 34 DKSFTFDYVFDMADVQTTIYELCAASLVAGS--LEG--YNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 34 ~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~--~~g--~n~~v~ayG~t~sGKt~T~ 86 (97)
+..|+||.-... .+++..|.. +..+.+.. ..| +| -++-||.+|+||||-+
T Consensus 105 ~~~~tFdnFv~g-~~N~~a~~~-a~~~a~~~~~~~~~~~n-pl~L~G~~G~GKTHLl 158 (445)
T PRK12422 105 DPLMTFANFLVT-PENDLPHRI-LQEFTKVSEQGKGFPFN-PIYLFGPEGSGKTHLM 158 (445)
T ss_pred CccccccceeeC-CcHHHHHHH-HHHHHhccccccCCCCc-eEEEEcCCCCCHHHHH
Confidence 456788865543 355555543 33333222 122 34 4678999999999987
No 105
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=87.48 E-value=0.18 Score=32.23 Aligned_cols=21 Identities=38% Similarity=0.605 Sum_probs=12.1
Q ss_pred CCCCEEEEeeccCCCccceee
Q psy15017 66 EGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 66 ~g~n~~v~ayG~t~sGKt~T~ 86 (97)
.+...+++-.|..|+|||+.+
T Consensus 21 ~~~~~~~ll~G~~G~GKT~ll 41 (185)
T PF13191_consen 21 SGSPRNLLLTGESGSGKTSLL 41 (185)
T ss_dssp S-----EEE-B-TTSSHHHHH
T ss_pred cCCCcEEEEECCCCCCHHHHH
Confidence 566777889999999999865
No 106
>cd01386 MYSc_type_XVIII Myosin motor domain, type XVIII myosins. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of force. Upon ATP binding, the myosin head dissociates from an actin filament. ATP hydrolysis causes the head to pivot and associate with a new actin subunit. The release of Pi causes the
Probab=87.27 E-value=0.73 Score=37.09 Aligned_cols=36 Identities=31% Similarity=0.486 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHHHHh-CCCCEEEEeeccCCCccceee
Q psy15017 50 TTIYELCAASLVAGSL-EGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 50 ~~v~~~~~~p~v~~~~-~g~n~~v~ayG~t~sGKt~T~ 86 (97)
..||.- +......++ .+.|.||+.-|.+|||||.|.
T Consensus 67 PHifai-A~~Ay~~m~~~~~~QsIiiSGESGAGKTe~t 103 (767)
T cd01386 67 PHIYSL-AQTAYRALLETRRDQSIIFLGRSGAGKTTSC 103 (767)
T ss_pred CCHHHH-HHHHHHHHHHcCCCceEEEecCCCCCcHHHH
Confidence 445543 333344444 589999999999999999764
No 107
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=86.62 E-value=0.32 Score=31.96 Aligned_cols=25 Identities=32% Similarity=0.516 Sum_probs=15.6
Q ss_pred HHHHhCCCCEEEEeeccCCCccceee
Q psy15017 61 VAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 61 v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
|..++.... ..+.-|..|+|||+|+
T Consensus 10 i~~~~~~~~-~~~i~GpPGTGKT~~l 34 (236)
T PF13086_consen 10 IQSALSSNG-ITLIQGPPGTGKTTTL 34 (236)
T ss_dssp HHHHCTSSE--EEEE-STTSSHHHHH
T ss_pred HHHHHcCCC-CEEEECCCCCChHHHH
Confidence 445554433 3445799999999886
No 108
>PRK06547 hypothetical protein; Provisional
Probab=86.52 E-value=0.88 Score=29.81 Aligned_cols=25 Identities=40% Similarity=0.404 Sum_probs=17.1
Q ss_pred HHHHhCCCCEEEEeeccCCCcccee
Q psy15017 61 VAGSLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 61 v~~~~~g~n~~v~ayG~t~sGKt~T 85 (97)
+..+..+....|...|.+|||||..
T Consensus 7 ~~~~~~~~~~~i~i~G~~GsGKTt~ 31 (172)
T PRK06547 7 AARLCGGGMITVLIDGRSGSGKTTL 31 (172)
T ss_pred HHHhhcCCCEEEEEECCCCCCHHHH
Confidence 3344445555666779999999864
No 109
>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli [].; GO: 0005524 ATP binding; PDB: 3B85_A.
Probab=86.41 E-value=0.54 Score=31.92 Aligned_cols=18 Identities=33% Similarity=0.678 Sum_probs=12.4
Q ss_pred CCEEEEeeccCCCcccee
Q psy15017 68 YNATILAYGQTGSGKTYT 85 (97)
Q Consensus 68 ~n~~v~ayG~t~sGKt~T 85 (97)
.+-.+++.|..|||||+.
T Consensus 18 ~~~~v~~~G~AGTGKT~L 35 (205)
T PF02562_consen 18 NNDLVIVNGPAGTGKTFL 35 (205)
T ss_dssp H-SEEEEE--TTSSTTHH
T ss_pred hCCeEEEECCCCCcHHHH
Confidence 344788999999999974
No 110
>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=86.25 E-value=0.22 Score=32.93 Aligned_cols=16 Identities=44% Similarity=0.669 Sum_probs=11.5
Q ss_pred EEEeeccCCCccceee
Q psy15017 71 TILAYGQTGSGKTYTM 86 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T~ 86 (97)
.++.+|.+|||||..|
T Consensus 40 h~li~G~tgsGKS~~l 55 (205)
T PF01580_consen 40 HLLIAGATGSGKSTLL 55 (205)
T ss_dssp SEEEE--TTSSHHHHH
T ss_pred eEEEEcCCCCCccHHH
Confidence 4667999999999876
No 111
>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=86.09 E-value=0.99 Score=33.86 Aligned_cols=27 Identities=26% Similarity=0.370 Sum_probs=23.7
Q ss_pred HHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 60 LVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 60 ~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
-++.+-+|....-|..|..||||||.+
T Consensus 40 ~l~~v~~G~s~~kfi~G~YGsGKTf~l 66 (416)
T PF10923_consen 40 DLDRVADGGSSFKFIRGEYGSGKTFFL 66 (416)
T ss_pred HHHHHhCCCCeEEEEEeCCCCcHHHHH
Confidence 457788999999999999999999976
No 112
>PRK06921 hypothetical protein; Provisional
Probab=85.92 E-value=0.4 Score=33.58 Aligned_cols=19 Identities=42% Similarity=0.567 Sum_probs=15.7
Q ss_pred CEEEEeeccCCCccceeec
Q psy15017 69 NATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~T~~ 87 (97)
...++-||.+|+||||.+.
T Consensus 117 ~~~l~l~G~~G~GKThLa~ 135 (266)
T PRK06921 117 KNSIALLGQPGSGKTHLLT 135 (266)
T ss_pred CCeEEEECCCCCcHHHHHH
Confidence 4467789999999999873
No 113
>COG3842 PotA ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]
Probab=85.65 E-value=0.27 Score=36.05 Aligned_cols=22 Identities=36% Similarity=0.460 Sum_probs=18.2
Q ss_pred eccCCCccceee--cCCCCCCCCC
Q psy15017 75 YGQTGSGKTYTM--GTGTFSPISR 96 (97)
Q Consensus 75 yG~t~sGKt~T~--~G~~~~~~~~ 96 (97)
.|.+|||||.+| ..+.+.|..|
T Consensus 37 LGPSGcGKTTlLR~IAGfe~p~~G 60 (352)
T COG3842 37 LGPSGCGKTTLLRMIAGFEQPSSG 60 (352)
T ss_pred ECCCCCCHHHHHHHHhCCCCCCCc
Confidence 699999999988 6777777665
No 114
>PF06048 DUF927: Domain of unknown function (DUF927); InterPro: IPR009270 This entry is represented by Bacteriophage PT1028, Orf1. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=84.95 E-value=1.2 Score=31.43 Aligned_cols=32 Identities=34% Similarity=0.360 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 54 ELCAASLVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 54 ~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
...+.|++ .++.-.+..+--||.|++|||.++
T Consensus 179 ~afa~pLL-~~l~~~~~~~hl~G~Ss~GKTt~~ 210 (286)
T PF06048_consen 179 AAFAAPLL-SLLGVEGFGFHLYGQSSSGKTTAL 210 (286)
T ss_pred HHHHHHHH-HHhCCCceEEEEEeCCCCCHHHHH
Confidence 34445666 455566678888999999999766
No 115
>PTZ00014 myosin-A; Provisional
Probab=84.87 E-value=1.2 Score=36.13 Aligned_cols=26 Identities=27% Similarity=0.358 Sum_probs=20.8
Q ss_pred HHHHHh-CCCCEEEEeeccCCCcccee
Q psy15017 60 LVAGSL-EGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 60 ~v~~~~-~g~n~~v~ayG~t~sGKt~T 85 (97)
....++ .+.|.||+.-|.+|+|||.+
T Consensus 173 Ay~~m~~~~~~QsIiiSGESGAGKTe~ 199 (821)
T PTZ00014 173 ALENLHGVKKSQTIIVSGESGAGKTEA 199 (821)
T ss_pred HHHHHHhcCCCceEEEEcCCCCCchHH
Confidence 344444 58899999999999999965
No 116
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=84.62 E-value=1.5 Score=30.89 Aligned_cols=16 Identities=50% Similarity=0.640 Sum_probs=13.1
Q ss_pred EEEeeccCCCccceee
Q psy15017 71 TILAYGQTGSGKTYTM 86 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T~ 86 (97)
.+.-.|.+|+|||+|+
T Consensus 196 vi~~vGptGvGKTTt~ 211 (282)
T TIGR03499 196 VIALVGPTGVGKTTTL 211 (282)
T ss_pred EEEEECCCCCCHHHHH
Confidence 4555599999999987
No 117
>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=84.56 E-value=0.99 Score=32.15 Aligned_cols=29 Identities=28% Similarity=0.378 Sum_probs=18.8
Q ss_pred HHHHHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 57 AASLVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 57 ~~p~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
+..+++..+.+... +.--|.+|||||..|
T Consensus 133 ~~~~l~~~v~~~~~-ili~G~tGsGKTTll 161 (308)
T TIGR02788 133 IKEFLRLAIASRKN-IIISGGTGSGKTTFL 161 (308)
T ss_pred HHHHHHHHhhCCCE-EEEECCCCCCHHHHH
Confidence 34455555554443 334599999999865
No 118
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=84.15 E-value=0.96 Score=33.71 Aligned_cols=24 Identities=38% Similarity=0.556 Sum_probs=18.3
Q ss_pred HHHHHhCCCCEEEEeeccCCCcccee
Q psy15017 60 LVAGSLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 60 ~v~~~~~g~n~~v~ayG~t~sGKt~T 85 (97)
.++.+++|.+ ++..++||||||..
T Consensus 34 ai~~~l~g~d--vi~~a~TGsGKT~a 57 (460)
T PRK11776 34 SLPAILAGKD--VIAQAKTGSGKTAA 57 (460)
T ss_pred HHHHHhcCCC--EEEECCCCCcHHHH
Confidence 4456778887 55678999999964
No 119
>KOG2543|consensus
Probab=84.12 E-value=0.37 Score=36.00 Aligned_cols=16 Identities=44% Similarity=0.945 Sum_probs=13.8
Q ss_pred EEEeeccCCCccceee
Q psy15017 71 TILAYGQTGSGKTYTM 86 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T~ 86 (97)
-|+-||.+||||||++
T Consensus 32 ~~~iyG~sgTGKT~~~ 47 (438)
T KOG2543|consen 32 IVHIYGHSGTGKTYLV 47 (438)
T ss_pred eEEEeccCCCchhHHH
Confidence 3578999999999986
No 120
>KOG0989|consensus
Probab=83.83 E-value=1.2 Score=32.45 Aligned_cols=22 Identities=41% Similarity=0.535 Sum_probs=16.5
Q ss_pred hCCCCEEEEeeccCCCccceee
Q psy15017 65 LEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 65 ~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
..+.--..+-||..|+|||.|.
T Consensus 53 ~~~~lp~~LFyGPpGTGKTSta 74 (346)
T KOG0989|consen 53 LRRILPHYLFYGPPGTGKTSTA 74 (346)
T ss_pred hhcCCceEEeeCCCCCcHhHHH
Confidence 3334445678999999999885
No 121
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=83.71 E-value=1 Score=33.69 Aligned_cols=39 Identities=26% Similarity=0.281 Sum_probs=22.2
Q ss_pred cHHHHHHHHHHHHHHHHhCC---C-CEEEEeeccCCCccceee
Q psy15017 48 VQTTIYELCAASLVAGSLEG---Y-NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 48 ~q~~v~~~~~~p~v~~~~~g---~-n~~v~ayG~t~sGKt~T~ 86 (97)
.....|.....-+...+.+. . ...|.=.|.||.|||.|+
T Consensus 178 ~~~~~~~~~l~~~~~~~~~~~~~~~~~vi~LVGPTGVGKTTTl 220 (407)
T COG1419 178 EDLRYFSEKLRKLLLSLIENLIVEQKRVIALVGPTGVGKTTTL 220 (407)
T ss_pred chhhhHHHHHHHHHHhhccccccccCcEEEEECCCCCcHHHHH
Confidence 34444444444444444444 1 333333499999999997
No 122
>cd01379 MYSc_type_III Myosin motor domain, type III myosins. Myosin III has been shown to play a role in the vision process in insects and in hearing in mammals. Myosin III, an unconventional myosin, does not form dimers. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of force. Upon ATP binding, the
Probab=83.37 E-value=1.4 Score=34.91 Aligned_cols=36 Identities=25% Similarity=0.391 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHHHHh-CCCCEEEEeeccCCCccceee
Q psy15017 50 TTIYELCAASLVAGSL-EGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 50 ~~v~~~~~~p~v~~~~-~g~n~~v~ayG~t~sGKt~T~ 86 (97)
..+|.- +......++ .+.+.||+.-|.+|||||.|.
T Consensus 67 PHifav-A~~Ay~~m~~~~~~QsIiisGESGsGKTet~ 103 (653)
T cd01379 67 PHIFAI-ADAAYQSLVTYNQDQCIVISGESGSGKTESA 103 (653)
T ss_pred CcHHHH-HHHHHHHHHhcCCCceEEEecCCCCCchHHH
Confidence 345643 223334444 588999999999999999874
No 123
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=83.33 E-value=1.7 Score=32.33 Aligned_cols=18 Identities=39% Similarity=0.586 Sum_probs=15.6
Q ss_pred CEEEEeeccCCCccceee
Q psy15017 69 NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~T~ 86 (97)
...++.+|.+|+|||.|+
T Consensus 174 ~~vi~lvGptGvGKTTT~ 191 (388)
T PRK12723 174 KRVFILVGPTGVGKTTTI 191 (388)
T ss_pred CeEEEEECCCCCCHHHHH
Confidence 457788999999999987
No 124
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=83.10 E-value=0.81 Score=33.60 Aligned_cols=25 Identities=36% Similarity=0.416 Sum_probs=17.9
Q ss_pred HHHHhCCCCEEEEeeccCCCccceee
Q psy15017 61 VAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 61 v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
+..+..+. +.++.-|-||||||.++
T Consensus 166 L~~av~~r-~NILisGGTGSGKTTlL 190 (355)
T COG4962 166 LRRAVGIR-CNILISGGTGSGKTTLL 190 (355)
T ss_pred HHHHHhhc-eeEEEeCCCCCCHHHHH
Confidence 33444444 56777899999999876
No 125
>PRK13764 ATPase; Provisional
Probab=82.90 E-value=0.64 Score=36.42 Aligned_cols=17 Identities=35% Similarity=0.483 Sum_probs=14.5
Q ss_pred EEEEeeccCCCccceee
Q psy15017 70 ATILAYGQTGSGKTYTM 86 (97)
Q Consensus 70 ~~v~ayG~t~sGKt~T~ 86 (97)
..++..|.||||||+++
T Consensus 258 ~~ILIsG~TGSGKTTll 274 (602)
T PRK13764 258 EGILIAGAPGAGKSTFA 274 (602)
T ss_pred CEEEEECCCCCCHHHHH
Confidence 34778899999999987
No 126
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=82.80 E-value=0.94 Score=28.49 Aligned_cols=26 Identities=31% Similarity=0.432 Sum_probs=16.2
Q ss_pred HHHHhCCCCEEEEeeccCCCccceeec
Q psy15017 61 VAGSLEGYNATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 61 v~~~~~g~n~~v~ayG~t~sGKt~T~~ 87 (97)
+..+++.. ..++..|.+|+|||.++.
T Consensus 17 ~~~~~~~~-~~~~i~~~~GsGKT~~~~ 42 (201)
T smart00487 17 IEALLSGL-RDVILAAPTGSGKTLAAL 42 (201)
T ss_pred HHHHHcCC-CcEEEECCCCCchhHHHH
Confidence 33444442 233456999999999663
No 127
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=82.26 E-value=1.3 Score=31.24 Aligned_cols=21 Identities=29% Similarity=0.395 Sum_probs=15.8
Q ss_pred CCC-CEEEEeeccCCCccceee
Q psy15017 66 EGY-NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 66 ~g~-n~~v~ayG~t~sGKt~T~ 86 (97)
.|. ...++-||..|+|||+.+
T Consensus 39 ~~~~~~~lll~G~~G~GKT~la 60 (316)
T PHA02544 39 KGRIPNMLLHSPSPGTGKTTVA 60 (316)
T ss_pred cCCCCeEEEeeCcCCCCHHHHH
Confidence 454 345666899999999876
No 128
>PRK04328 hypothetical protein; Provisional
Probab=81.90 E-value=1.4 Score=30.47 Aligned_cols=26 Identities=27% Similarity=0.364 Sum_probs=20.9
Q ss_pred HHHHHHhCC---CCEEEEeeccCCCccce
Q psy15017 59 SLVAGSLEG---YNATILAYGQTGSGKTY 84 (97)
Q Consensus 59 p~v~~~~~g---~n~~v~ayG~t~sGKt~ 84 (97)
+-++.++.| ..+.++.+|..|+|||-
T Consensus 10 ~~LD~lL~GGip~gs~ili~G~pGsGKT~ 38 (249)
T PRK04328 10 PGMDEILYGGIPERNVVLLSGGPGTGKSI 38 (249)
T ss_pred hhHHHHhcCCCcCCcEEEEEcCCCCCHHH
Confidence 457788875 57788899999999964
No 129
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=81.74 E-value=1.3 Score=32.64 Aligned_cols=24 Identities=33% Similarity=0.594 Sum_probs=19.0
Q ss_pred HHHHHhCCCCEEEEeeccCCCcccee
Q psy15017 60 LVAGSLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 60 ~v~~~~~g~n~~v~ayG~t~sGKt~T 85 (97)
.+..+++|.+ +++.+.||+|||..
T Consensus 31 ai~~~~~g~d--~l~~apTGsGKT~~ 54 (434)
T PRK11192 31 AIPPALDGRD--VLGSAPTGTGKTAA 54 (434)
T ss_pred HHHHHhCCCC--EEEECCCCChHHHH
Confidence 4556778887 66789999999975
No 130
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=81.68 E-value=1.4 Score=32.91 Aligned_cols=24 Identities=42% Similarity=0.628 Sum_probs=18.7
Q ss_pred HHHHHhCCCCEEEEeeccCCCcccee
Q psy15017 60 LVAGSLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 60 ~v~~~~~g~n~~v~ayG~t~sGKt~T 85 (97)
.+..+++|.| +++-..||||||..
T Consensus 31 ai~~il~g~d--vlv~apTGsGKTla 54 (456)
T PRK10590 31 AIPAVLEGRD--LMASAQTGTGKTAG 54 (456)
T ss_pred HHHHHhCCCC--EEEECCCCCcHHHH
Confidence 4556788887 55678999999965
No 131
>KOG1547|consensus
Probab=81.59 E-value=2.7 Score=29.90 Aligned_cols=32 Identities=22% Similarity=0.471 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHh-CCCCEEEEeeccCCCccce
Q psy15017 53 YELCAASLVAGSL-EGYNATILAYGQTGSGKTY 84 (97)
Q Consensus 53 ~~~~~~p~v~~~~-~g~n~~v~ayG~t~sGKt~ 84 (97)
++.++.+|-..++ .|+...|++-|++|.||+.
T Consensus 29 idtI~~Qm~~k~mk~GF~FNIMVVgqSglgkst 61 (336)
T KOG1547|consen 29 IDTIIEQMRKKTMKTGFDFNIMVVGQSGLGKST 61 (336)
T ss_pred HHHHHHHHHHHHHhccCceEEEEEecCCCCchh
Confidence 3455555555555 6999999999999999974
No 132
>PRK10536 hypothetical protein; Provisional
Probab=80.85 E-value=1.3 Score=31.35 Aligned_cols=41 Identities=22% Similarity=0.288 Sum_probs=25.5
Q ss_pred eeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 36 SFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 36 ~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
.|.+..+-+-+..|..... .+.+ +..++..|..|+||||..
T Consensus 51 ~~~~~~i~p~n~~Q~~~l~--------al~~--~~lV~i~G~aGTGKT~La 91 (262)
T PRK10536 51 SRDTSPILARNEAQAHYLK--------AIES--KQLIFATGEAGCGKTWIS 91 (262)
T ss_pred hcCCccccCCCHHHHHHHH--------HHhc--CCeEEEECCCCCCHHHHH
Confidence 3555555555555555443 2223 237889999999999865
No 133
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=80.83 E-value=2.8 Score=34.16 Aligned_cols=38 Identities=29% Similarity=0.406 Sum_probs=27.8
Q ss_pred HHHHHHHHHH-HHHHHHhCCCCEEEEeeccCCCccceeec
Q psy15017 49 QTTIYELCAA-SLVAGSLEGYNATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 49 q~~v~~~~~~-p~v~~~~~g~n~~v~ayG~t~sGKt~T~~ 87 (97)
....|+..+. .+++.+-+|.+-.++++ .||+|||+|-+
T Consensus 165 ~~RyyQ~~AI~rv~Eaf~~g~~raLlvM-ATGTGKTrTAi 203 (875)
T COG4096 165 GPRYYQIIAIRRVIEAFSKGQNRALLVM-ATGTGKTRTAI 203 (875)
T ss_pred cchHHHHHHHHHHHHHHhcCCceEEEEE-ecCCCcceeHH
Confidence 4556665544 56777778999877775 69999999953
No 134
>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=80.77 E-value=1.6 Score=29.32 Aligned_cols=29 Identities=28% Similarity=0.365 Sum_probs=21.5
Q ss_pred HHHHHHHhCC---CCEEEEeeccCCCccceee
Q psy15017 58 ASLVAGSLEG---YNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 58 ~p~v~~~~~g---~n~~v~ayG~t~sGKt~T~ 86 (97)
.+-++.++.| ....+.-+|.+|+|||.-+
T Consensus 5 ~~~lD~~l~GGi~~g~i~~i~G~~GsGKT~l~ 36 (235)
T cd01123 5 SKALDELLGGGIETGSITEIFGEFGSGKTQLC 36 (235)
T ss_pred chhhHhhccCCCCCCeEEEEECCCCCCHHHHH
Confidence 3556777774 4566778899999998654
No 135
>PTZ00424 helicase 45; Provisional
Probab=80.74 E-value=1.5 Score=31.78 Aligned_cols=25 Identities=36% Similarity=0.563 Sum_probs=19.2
Q ss_pred HHHHHHhCCCCEEEEeeccCCCcccee
Q psy15017 59 SLVAGSLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 59 p~v~~~~~g~n~~v~ayG~t~sGKt~T 85 (97)
..+..+++|.+.. ..+.||||||..
T Consensus 57 ~ai~~i~~~~d~i--i~apTGsGKT~~ 81 (401)
T PTZ00424 57 RGIKPILDGYDTI--GQAQSGTGKTAT 81 (401)
T ss_pred HHHHHHhCCCCEE--EECCCCChHHHH
Confidence 3566778898854 568999999964
No 136
>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=80.65 E-value=2 Score=30.10 Aligned_cols=41 Identities=22% Similarity=0.189 Sum_probs=23.9
Q ss_pred CCCcHHHHHHHHHHHHHHHHh--CCCCEEEEeeccCCCccceee
Q psy15017 45 MADVQTTIYELCAASLVAGSL--EGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 45 ~~~~q~~v~~~~~~p~v~~~~--~g~n~~v~ayG~t~sGKt~T~ 86 (97)
+...|+++-+.. ...+.... .+....++-||..|+|||+..
T Consensus 5 ~~iG~~~~~~~l-~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la 47 (305)
T TIGR00635 5 EFIGQEKVKEQL-QLFIEAAKMRQEALDHLLLYGPPGLGKTTLA 47 (305)
T ss_pred HHcCHHHHHHHH-HHHHHHHHhcCCCCCeEEEECCCCCCHHHHH
Confidence 344566666552 22333322 222334667999999999865
No 137
>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]
Probab=80.65 E-value=1.5 Score=33.99 Aligned_cols=43 Identities=26% Similarity=0.512 Sum_probs=29.6
Q ss_pred CeeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCcc
Q psy15017 34 DKSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATILAYGQTGSGK 82 (97)
Q Consensus 34 ~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGK 82 (97)
...|+||.+..++..-..+-.. + ......+++|+-.|.||+||
T Consensus 239 ~a~y~f~~Iig~S~~m~~~~~~-----a-kr~A~tdstVLi~GESGTGK 281 (560)
T COG3829 239 KAKYTFDDIIGESPAMLRVLEL-----A-KRIAKTDSTVLILGESGTGK 281 (560)
T ss_pred ccccchhhhccCCHHHHHHHHH-----H-HhhcCCCCcEEEecCCCccH
Confidence 3568888888766433332222 1 34568899999999999999
No 138
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=80.60 E-value=1.7 Score=30.38 Aligned_cols=21 Identities=33% Similarity=0.415 Sum_probs=15.7
Q ss_pred CCCCEEEEeeccCCCccceee
Q psy15017 66 EGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 66 ~g~n~~v~ayG~t~sGKt~T~ 86 (97)
.+....++-||..|+|||+.+
T Consensus 35 ~~~~~~~ll~G~~G~GKt~~~ 55 (319)
T PRK00440 35 EKNMPHLLFAGPPGTGKTTAA 55 (319)
T ss_pred CCCCCeEEEECCCCCCHHHHH
Confidence 444444677999999998765
No 139
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=80.59 E-value=1.5 Score=32.34 Aligned_cols=24 Identities=33% Similarity=0.462 Sum_probs=18.2
Q ss_pred HHHHHhCCCCEEEEeeccCCCcccee
Q psy15017 60 LVAGSLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 60 ~v~~~~~g~n~~v~ayG~t~sGKt~T 85 (97)
.+..++.|.+. ++-+.||||||..
T Consensus 38 aip~il~g~dv--i~~ApTGsGKTla 61 (423)
T PRK04837 38 ALPLTLAGRDV--AGQAQTGTGKTMA 61 (423)
T ss_pred HHHHHhCCCcE--EEECCCCchHHHH
Confidence 45567889874 4567999999964
No 140
>PLN03025 replication factor C subunit; Provisional
Probab=80.54 E-value=1.7 Score=30.93 Aligned_cols=17 Identities=29% Similarity=0.542 Sum_probs=13.6
Q ss_pred EEEeeccCCCccceeec
Q psy15017 71 TILAYGQTGSGKTYTMG 87 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T~~ 87 (97)
.++-||..|+|||++..
T Consensus 36 ~lll~Gp~G~GKTtla~ 52 (319)
T PLN03025 36 NLILSGPPGTGKTTSIL 52 (319)
T ss_pred eEEEECCCCCCHHHHHH
Confidence 45569999999998763
No 141
>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed
Probab=80.45 E-value=3 Score=28.21 Aligned_cols=38 Identities=18% Similarity=0.128 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHHHHhC-CCCEEEEeeccCCCccceee
Q psy15017 49 QTTIYELCAASLVAGSLE-GYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 49 q~~v~~~~~~p~v~~~~~-g~n~~v~ayG~t~sGKt~T~ 86 (97)
-+.+|..++.-+....-+ +..-.+---|.+|||||..+
T Consensus 12 ~~~~~~~l~~~~~~~~~~~~~~~iigi~G~~GsGKTTl~ 50 (229)
T PRK09270 12 IEAVHKPLLRRLAALQAEPQRRTIVGIAGPPGAGKSTLA 50 (229)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCEEEEEECCCCCCHHHHH
Confidence 445555555544433333 33444444599999998743
No 142
>TIGR00348 hsdR type I site-specific deoxyribonuclease, HsdR family. Members of this family are assumed to differ from each other in DNA site specificity.
Probab=80.33 E-value=1.7 Score=34.30 Aligned_cols=29 Identities=28% Similarity=0.375 Sum_probs=18.7
Q ss_pred HHHHHHHhC-----CCCEEEEeeccCCCccceeec
Q psy15017 58 ASLVAGSLE-----GYNATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 58 ~p~v~~~~~-----g~n~~v~ayG~t~sGKt~T~~ 87 (97)
..+++.+.. |.+..++ .-.||||||.||.
T Consensus 248 ~~~~~~~~~~~~~~~~~~gli-~~~TGsGKT~t~~ 281 (667)
T TIGR00348 248 KKIVESITRKTWGKDERGGLI-WHTQGSGKTLTML 281 (667)
T ss_pred HHHHHHHHhcccCCCCceeEE-EEecCCCccHHHH
Confidence 345555554 3444443 3599999999994
No 143
>cd00268 DEADc DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP- binding region.
Probab=79.81 E-value=2 Score=28.02 Aligned_cols=23 Identities=39% Similarity=0.592 Sum_probs=16.8
Q ss_pred HHHHhCCCCEEEEeeccCCCcccee
Q psy15017 61 VAGSLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 61 v~~~~~g~n~~v~ayG~t~sGKt~T 85 (97)
++.+++|.| ++..+.||+|||.+
T Consensus 30 ~~~~~~~~~--~li~~~TG~GKT~~ 52 (203)
T cd00268 30 IPPLLSGRD--VIGQAQTGSGKTAA 52 (203)
T ss_pred HHHHhcCCc--EEEECCCCCcHHHH
Confidence 345556776 45678999999966
No 144
>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=79.66 E-value=0.78 Score=30.37 Aligned_cols=19 Identities=37% Similarity=0.452 Sum_probs=13.4
Q ss_pred CCEEEEeeccCCCccceee
Q psy15017 68 YNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 68 ~n~~v~ayG~t~sGKt~T~ 86 (97)
..-.++.-|+.|||||..+
T Consensus 14 ~P~~~i~aG~~GsGKSt~~ 32 (199)
T PF06414_consen 14 KPTLIIIAGQPGSGKSTLA 32 (199)
T ss_dssp S-EEEEEES-TTSTTHHHH
T ss_pred CCEEEEEeCCCCCCHHHHH
Confidence 3456777899999998765
No 145
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=79.41 E-value=2 Score=34.97 Aligned_cols=24 Identities=42% Similarity=0.486 Sum_probs=19.3
Q ss_pred HHHHHhCCCCEEEEeeccCCCcccee
Q psy15017 60 LVAGSLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 60 ~v~~~~~g~n~~v~ayG~t~sGKt~T 85 (97)
.+..+.+|.|..|.| .||||||-+
T Consensus 30 a~~~i~~G~nvLiiA--PTGsGKTeA 53 (814)
T COG1201 30 AIPEIHSGENVLIIA--PTGSGKTEA 53 (814)
T ss_pred HHHHHhCCCceEEEc--CCCCChHHH
Confidence 455678999988755 999999865
No 146
>KOG2373|consensus
Probab=79.32 E-value=2.6 Score=31.55 Aligned_cols=27 Identities=41% Similarity=0.604 Sum_probs=20.6
Q ss_pred HHHHHHhCCC---CEEEEeeccCCCccceee
Q psy15017 59 SLVAGSLEGY---NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 59 p~v~~~~~g~---n~~v~ayG~t~sGKt~T~ 86 (97)
|.++.++.|. ..+|++ |.||||||.-|
T Consensus 261 pvLNk~LkGhR~GElTvlT-GpTGsGKTTFl 290 (514)
T KOG2373|consen 261 PVLNKYLKGHRPGELTVLT-GPTGSGKTTFL 290 (514)
T ss_pred hHHHHHhccCCCCceEEEe-cCCCCCceeEe
Confidence 7778888776 345665 99999998654
No 147
>PHA02653 RNA helicase NPH-II; Provisional
Probab=79.07 E-value=2.1 Score=34.08 Aligned_cols=24 Identities=25% Similarity=0.349 Sum_probs=18.1
Q ss_pred HHHHHhCCCCEEEEeeccCCCcccee
Q psy15017 60 LVAGSLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 60 ~v~~~~~g~n~~v~ayG~t~sGKt~T 85 (97)
+++.+++|.+ ++..|+||||||.-
T Consensus 172 il~~i~~gkd--vIv~A~TGSGKTtq 195 (675)
T PHA02653 172 IFEAWISRKP--VVLTGGTGVGKTSQ 195 (675)
T ss_pred HHHHHHhCCC--EEEECCCCCCchhH
Confidence 4556677775 46789999999964
No 148
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=78.85 E-value=0.89 Score=33.62 Aligned_cols=18 Identities=39% Similarity=0.484 Sum_probs=14.6
Q ss_pred CEEEEeeccCCCccceee
Q psy15017 69 NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~T~ 86 (97)
...+.-.|.+|+|||+|+
T Consensus 137 g~ii~lvGptGvGKTTti 154 (374)
T PRK14722 137 GGVFALMGPTGVGKTTTT 154 (374)
T ss_pred CcEEEEECCCCCCHHHHH
Confidence 345666799999999987
No 149
>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=78.81 E-value=1.8 Score=30.92 Aligned_cols=22 Identities=27% Similarity=0.400 Sum_probs=18.3
Q ss_pred hCCCCEEEEeeccCCCccceee
Q psy15017 65 LEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 65 ~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
....+.-++-+|..|||||.+|
T Consensus 19 ~~~~~~r~vL~G~~GsGKS~~L 40 (309)
T PF10236_consen 19 KSSKNNRYVLTGERGSGKSVLL 40 (309)
T ss_pred ccCCceEEEEECCCCCCHHHHH
Confidence 3466777888999999999887
No 150
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=78.06 E-value=0.92 Score=32.66 Aligned_cols=21 Identities=33% Similarity=0.536 Sum_probs=17.2
Q ss_pred CCCCEEEEeeccCCCccceee
Q psy15017 66 EGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 66 ~g~n~~v~ayG~t~sGKt~T~ 86 (97)
++-.-.|+-||.+|+|||++-
T Consensus 148 ~WAPknVLFyGppGTGKTm~A 168 (368)
T COG1223 148 DWAPKNVLFYGPPGTGKTMMA 168 (368)
T ss_pred ccCcceeEEECCCCccHHHHH
Confidence 566667888999999999864
No 151
>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=77.61 E-value=1 Score=30.83 Aligned_cols=19 Identities=42% Similarity=0.686 Sum_probs=15.8
Q ss_pred CEEEEeeccCCCccceeec
Q psy15017 69 NATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~T~~ 87 (97)
...++-||..|+|||+..-
T Consensus 12 ~~~~liyG~~G~GKtt~a~ 30 (220)
T TIGR01618 12 PNMYLIYGKPGTGKTSTIK 30 (220)
T ss_pred CcEEEEECCCCCCHHHHHH
Confidence 4458899999999998773
No 152
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=77.61 E-value=2.1 Score=33.65 Aligned_cols=24 Identities=42% Similarity=0.596 Sum_probs=18.5
Q ss_pred HHHHHhCCCCEEEEeeccCCCcccee
Q psy15017 60 LVAGSLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 60 ~v~~~~~g~n~~v~ayG~t~sGKt~T 85 (97)
.+..+++|.+ ++..++||||||..
T Consensus 36 ai~~ll~g~d--vl~~ApTGsGKT~a 59 (629)
T PRK11634 36 CIPHLLNGRD--VLGMAQTGSGKTAA 59 (629)
T ss_pred HHHHHHcCCC--EEEEcCCCCcHHHH
Confidence 4556778876 56788999999965
No 153
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=77.41 E-value=2.8 Score=28.08 Aligned_cols=30 Identities=30% Similarity=0.526 Sum_probs=21.6
Q ss_pred HHHHHHHHhC-CC--CEEEEeeccCCCccceee
Q psy15017 57 AASLVAGSLE-GY--NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 57 ~~p~v~~~~~-g~--n~~v~ayG~t~sGKt~T~ 86 (97)
.-+-++.++. |. ...+.-+|.+|+|||...
T Consensus 8 Gi~~lD~~l~GGi~~g~i~~i~G~~GsGKT~l~ 40 (225)
T PRK09361 8 GCKMLDELLGGGFERGTITQIYGPPGSGKTNIC 40 (225)
T ss_pred CcHHHHHHhcCCCCCCeEEEEECCCCCCHHHHH
Confidence 3456778885 32 556788999999998653
No 154
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=77.41 E-value=2.1 Score=32.07 Aligned_cols=25 Identities=36% Similarity=0.433 Sum_probs=19.0
Q ss_pred HHHHHHhCCCCEEEEeeccCCCcccee
Q psy15017 59 SLVAGSLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 59 p~v~~~~~g~n~~v~ayG~t~sGKt~T 85 (97)
..+..+++|.|..+ -..||||||..
T Consensus 116 ~ai~~~~~G~dvi~--~apTGSGKTla 140 (475)
T PRK01297 116 QVLGYTLAGHDAIG--RAQTGTGKTAA 140 (475)
T ss_pred HHHHHHhCCCCEEE--ECCCCChHHHH
Confidence 46677889998654 56999999943
No 155
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=77.38 E-value=2.9 Score=31.83 Aligned_cols=26 Identities=23% Similarity=0.356 Sum_probs=18.1
Q ss_pred HHHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 59 SLVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 59 p~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
.++..+..+.|..+ ||..|+|||+..
T Consensus 186 ~l~~~L~~~~~iil--~GppGtGKT~lA 211 (459)
T PRK11331 186 TILKRLTIKKNIIL--QGPPGVGKTFVA 211 (459)
T ss_pred HHHHHHhcCCCEEE--ECCCCCCHHHHH
Confidence 34555556666443 999999999764
No 156
>TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=77.33 E-value=2.5 Score=31.77 Aligned_cols=24 Identities=25% Similarity=0.423 Sum_probs=18.0
Q ss_pred HHHHHhCCCCEEEEeeccCCCcccee
Q psy15017 60 LVAGSLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 60 ~v~~~~~g~n~~v~ayG~t~sGKt~T 85 (97)
.++.+++|.+. ++...||||||..
T Consensus 19 ai~~~l~g~dv--lv~apTGsGKTl~ 42 (470)
T TIGR00614 19 VINAVLLGRDC--FVVMPTGGGKSLC 42 (470)
T ss_pred HHHHHHcCCCE--EEEcCCCCcHhHH
Confidence 45567888874 4567999999964
No 157
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=77.27 E-value=1.8 Score=36.33 Aligned_cols=27 Identities=37% Similarity=0.397 Sum_probs=18.2
Q ss_pred HHHHHhCCCCEEEEeeccCCCccceeec
Q psy15017 60 LVAGSLEGYNATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 60 ~v~~~~~g~n~~v~ayG~t~sGKt~T~~ 87 (97)
+.+.+.+|....++. ..||||||+|+.
T Consensus 425 i~~a~~~g~r~~Ll~-maTGSGKT~tai 451 (1123)
T PRK11448 425 VEKAIVEGQREILLA-MATGTGKTRTAI 451 (1123)
T ss_pred HHHHHHhccCCeEEE-eCCCCCHHHHHH
Confidence 334444565544444 899999999975
No 158
>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]
Probab=77.14 E-value=1 Score=31.12 Aligned_cols=24 Identities=33% Similarity=0.392 Sum_probs=17.4
Q ss_pred EeeccCCCccceee--cCCCCCCCCC
Q psy15017 73 LAYGQTGSGKTYTM--GTGTFSPISR 96 (97)
Q Consensus 73 ~ayG~t~sGKt~T~--~G~~~~~~~~ 96 (97)
.-.|.+|||||.-| .|.-..|..|
T Consensus 35 aI~GpSGSGKSTLLniig~ld~pt~G 60 (226)
T COG1136 35 AIVGPSGSGKSTLLNLLGGLDKPTSG 60 (226)
T ss_pred EEECCCCCCHHHHHHHHhcccCCCCc
Confidence 45799999999766 5666666443
No 159
>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=76.91 E-value=1.8 Score=34.04 Aligned_cols=17 Identities=41% Similarity=0.546 Sum_probs=14.1
Q ss_pred EEEeeccCCCccceeec
Q psy15017 71 TILAYGQTGSGKTYTMG 87 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T~~ 87 (97)
.++..|..|+|||+|+.
T Consensus 175 ~~lI~GpPGTGKT~t~~ 191 (637)
T TIGR00376 175 LFLIHGPPGTGKTRTLV 191 (637)
T ss_pred eEEEEcCCCCCHHHHHH
Confidence 34578999999999973
No 160
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=76.84 E-value=1.8 Score=34.70 Aligned_cols=21 Identities=29% Similarity=0.490 Sum_probs=16.6
Q ss_pred CCCCEEEEeeccCCCccceee
Q psy15017 66 EGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 66 ~g~n~~v~ayG~t~sGKt~T~ 86 (97)
.+.-..++-||..|+|||+..
T Consensus 49 ~~~~~slLL~GPpGtGKTTLA 69 (725)
T PRK13341 49 ADRVGSLILYGPPGVGKTTLA 69 (725)
T ss_pred cCCCceEEEECCCCCCHHHHH
Confidence 455556778999999999875
No 161
>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=76.83 E-value=1.2 Score=31.27 Aligned_cols=26 Identities=31% Similarity=0.461 Sum_probs=17.4
Q ss_pred HHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 60 LVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 60 ~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
+++.+++. +--++-.|.+|+|||-.+
T Consensus 25 ll~~l~~~-~~pvLl~G~~GtGKT~li 50 (272)
T PF12775_consen 25 LLDLLLSN-GRPVLLVGPSGTGKTSLI 50 (272)
T ss_dssp HHHHHHHC-TEEEEEESSTTSSHHHHH
T ss_pred HHHHHHHc-CCcEEEECCCCCchhHHH
Confidence 44445543 334566799999999776
No 162
>PF02456 Adeno_IVa2: Adenovirus IVa2 protein; InterPro: IPR003389 Va2 protein can interact with the adenoviral packaging signal and this interaction involves DNA sequences that have previously been demonstrated to be required for packaging []. During the course of lytic infection, the adenovirus major late promoter (MLP) is induced to high levels after replication of viral DNA has started. IVa2 is a transcriptional activator of the major late promoter [].; GO: 0019083 viral transcription
Probab=76.64 E-value=1 Score=32.88 Aligned_cols=15 Identities=47% Similarity=0.755 Sum_probs=12.8
Q ss_pred EEeeccCCCccceee
Q psy15017 72 ILAYGQTGSGKTYTM 86 (97)
Q Consensus 72 v~ayG~t~sGKt~T~ 86 (97)
...||.|||||++-+
T Consensus 90 ~~VYGPTG~GKSqLl 104 (369)
T PF02456_consen 90 GVVYGPTGSGKSQLL 104 (369)
T ss_pred EEEECCCCCCHHHHH
Confidence 467999999998865
No 163
>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=76.45 E-value=1 Score=31.14 Aligned_cols=18 Identities=28% Similarity=0.416 Sum_probs=14.5
Q ss_pred CEEEEeeccCCCccceee
Q psy15017 69 NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~T~ 86 (97)
...++-||..|+|||+..
T Consensus 42 ~~~vll~GppGtGKTtlA 59 (261)
T TIGR02881 42 VLHMIFKGNPGTGKTTVA 59 (261)
T ss_pred cceEEEEcCCCCCHHHHH
Confidence 345677999999999865
No 164
>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=76.45 E-value=2.7 Score=27.54 Aligned_cols=24 Identities=33% Similarity=0.657 Sum_probs=16.4
Q ss_pred HHHHhCCCCEEEEeeccCCCccceee
Q psy15017 61 VAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 61 v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
+...+.+ ..++| .|++|.||+..+
T Consensus 29 l~~~l~~-k~~vl-~G~SGvGKSSLi 52 (161)
T PF03193_consen 29 LKELLKG-KTSVL-LGQSGVGKSSLI 52 (161)
T ss_dssp HHHHHTT-SEEEE-ECSTTSSHHHHH
T ss_pred HHHHhcC-CEEEE-ECCCCCCHHHHH
Confidence 4456677 44444 599999998654
No 165
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=76.26 E-value=3.1 Score=31.79 Aligned_cols=24 Identities=38% Similarity=0.598 Sum_probs=18.4
Q ss_pred HHHHHhCCCCEEEEeeccCCCcccee
Q psy15017 60 LVAGSLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 60 ~v~~~~~g~n~~v~ayG~t~sGKt~T 85 (97)
.+..+++|.| +++-..||||||..
T Consensus 151 aip~il~g~d--viv~ApTGSGKTla 174 (518)
T PLN00206 151 AIPAALSGRS--LLVSADTGSGKTAS 174 (518)
T ss_pred HHHHHhcCCC--EEEEecCCCCccHH
Confidence 4567788887 45678999999953
No 166
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=75.65 E-value=2.6 Score=32.68 Aligned_cols=24 Identities=33% Similarity=0.477 Sum_probs=18.9
Q ss_pred HHHHHhCCCCEEEEeeccCCCcccee
Q psy15017 60 LVAGSLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 60 ~v~~~~~g~n~~v~ayG~t~sGKt~T 85 (97)
.|..+++|.| ++....||||||..
T Consensus 39 ~ip~~l~G~D--vi~~ApTGSGKTla 62 (572)
T PRK04537 39 TLPVALPGGD--VAGQAQTGTGKTLA 62 (572)
T ss_pred HHHHHhCCCC--EEEEcCCCCcHHHH
Confidence 4567889988 44578999999965
No 167
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=75.62 E-value=2.7 Score=28.42 Aligned_cols=28 Identities=29% Similarity=0.411 Sum_probs=20.1
Q ss_pred HHHHHHHhC-CC--CEEEEeeccCCCcccee
Q psy15017 58 ASLVAGSLE-GY--NATILAYGQTGSGKTYT 85 (97)
Q Consensus 58 ~p~v~~~~~-g~--n~~v~ayG~t~sGKt~T 85 (97)
-+-++.++. |. .+.+..+|.+|+|||+-
T Consensus 11 i~~LD~~l~gG~~~g~~~~i~G~~GsGKt~l 41 (234)
T PRK06067 11 NEELDRKLGGGIPFPSLILIEGDHGTGKSVL 41 (234)
T ss_pred CHHHHHhhCCCCcCCcEEEEECCCCCChHHH
Confidence 345667775 42 66777889999999753
No 168
>TIGR02746 TraC-F-type type-IV secretion system protein TraC. The protein family described here is common among the F, P and I-like type IV secretion systems. Gene symbols include TraC (F-type), TrbE/VirB4 (P-type) and TraU (I-type). The protein conyains the Walker A and B motifs and so is a putative nucleotide triphosphatase.
Probab=75.51 E-value=0.98 Score=35.96 Aligned_cols=18 Identities=39% Similarity=0.689 Sum_probs=14.7
Q ss_pred CEEEEeeccCCCccceee
Q psy15017 69 NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~T~ 86 (97)
|..++..|.||||||++|
T Consensus 430 n~n~~I~G~tGsGKS~~~ 447 (797)
T TIGR02746 430 NYNIAVVGGSGAGKSFFM 447 (797)
T ss_pred ccceEEEcCCCCCHHHHH
Confidence 344667899999999987
No 169
>PHA01747 putative ATP-dependent protease
Probab=75.45 E-value=1.5 Score=32.82 Aligned_cols=29 Identities=24% Similarity=0.381 Sum_probs=23.0
Q ss_pred HHHHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 58 ASLVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 58 ~p~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
.|+++.-..+.|-.++-.|..|+||||+-
T Consensus 179 iPlVE~~~~~~NyNliELgPRGTGKS~~f 207 (425)
T PHA01747 179 LPLFTSPVSKRPVHIIELSNRGTGKTTTF 207 (425)
T ss_pred hhheeccCCCCCeeEEEecCCCCChhhHH
Confidence 36666445677888889999999999986
No 170
>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=75.42 E-value=2.1 Score=28.26 Aligned_cols=17 Identities=41% Similarity=0.604 Sum_probs=14.0
Q ss_pred CEEEEeeccCCCcccee
Q psy15017 69 NATILAYGQTGSGKTYT 85 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~T 85 (97)
...+.-+|.+|||||.-
T Consensus 12 g~i~~i~G~~GsGKT~l 28 (209)
T TIGR02237 12 GTITQIYGPPGSGKTNI 28 (209)
T ss_pred CeEEEEECCCCCCHHHH
Confidence 56678899999999864
No 171
>PRK13342 recombination factor protein RarA; Reviewed
Probab=75.10 E-value=2 Score=31.82 Aligned_cols=39 Identities=21% Similarity=0.217 Sum_probs=22.3
Q ss_pred CcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 47 DVQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 47 ~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
..|+.+... ..++...+-.+....++-||..|+|||...
T Consensus 15 vGq~~~v~~-~~~L~~~i~~~~~~~ilL~GppGtGKTtLA 53 (413)
T PRK13342 15 VGQEHLLGP-GKPLRRMIEAGRLSSMILWGPPGTGKTTLA 53 (413)
T ss_pred cCcHHHhCc-chHHHHHHHcCCCceEEEECCCCCCHHHHH
Confidence 345554432 122333333454445666999999999765
No 172
>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]
Probab=74.75 E-value=1.2 Score=31.91 Aligned_cols=12 Identities=58% Similarity=0.880 Sum_probs=11.1
Q ss_pred eccCCCccceee
Q psy15017 75 YGQTGSGKTYTM 86 (97)
Q Consensus 75 yG~t~sGKt~T~ 86 (97)
.|.+|||||.||
T Consensus 33 iGpSGsGKTTtL 44 (309)
T COG1125 33 IGPSGSGKTTTL 44 (309)
T ss_pred ECCCCCcHHHHH
Confidence 599999999997
No 173
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=74.71 E-value=3 Score=32.53 Aligned_cols=24 Identities=25% Similarity=0.475 Sum_probs=17.5
Q ss_pred HHHHHhCCCCEEEEeeccCCCcccee
Q psy15017 60 LVAGSLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 60 ~v~~~~~g~n~~v~ayG~t~sGKt~T 85 (97)
.++.+++|.+..+ -..||+|||-.
T Consensus 33 ai~~il~g~dvlv--~apTGsGKTl~ 56 (607)
T PRK11057 33 IIDAVLSGRDCLV--VMPTGGGKSLC 56 (607)
T ss_pred HHHHHHcCCCEEE--EcCCCchHHHH
Confidence 3456678887654 57999999853
No 174
>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=74.57 E-value=4.1 Score=28.27 Aligned_cols=24 Identities=29% Similarity=0.369 Sum_probs=16.6
Q ss_pred HHHHHhCCCCEEEEeeccCCCcccee
Q psy15017 60 LVAGSLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 60 ~v~~~~~g~n~~v~ayG~t~sGKt~T 85 (97)
+...+..|.+.. -.|.+|+|||..
T Consensus 14 ~l~~l~~g~~vL--L~G~~GtGKT~l 37 (262)
T TIGR02640 14 ALRYLKSGYPVH--LRGPAGTGKTTL 37 (262)
T ss_pred HHHHHhcCCeEE--EEcCCCCCHHHH
Confidence 444455666554 489999999864
No 175
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=74.41 E-value=2.1 Score=30.06 Aligned_cols=49 Identities=20% Similarity=0.385 Sum_probs=27.4
Q ss_pred CCeeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCE-EEEeeccCCCccceee
Q psy15017 33 ADKSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNA-TILAYGQTGSGKTYTM 86 (97)
Q Consensus 33 ~~~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~-~v~ayG~t~sGKt~T~ 86 (97)
.+....+|...+-+.-.+.+.+.+ ..+++|..+ .++-||..|+|||.++
T Consensus 20 ~~~~~~l~~L~Gie~Qk~~l~~Nt-----~~Fl~G~pannvLL~G~rGtGKSSlV 69 (249)
T PF05673_consen 20 HPDPIRLDDLIGIERQKEALIENT-----EQFLQGLPANNVLLWGARGTGKSSLV 69 (249)
T ss_pred CCCCCCHHHhcCHHHHHHHHHHHH-----HHHHcCCCCcceEEecCCCCCHHHHH
Confidence 333444444444333333333332 456666633 2566999999998765
No 176
>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=74.33 E-value=5.8 Score=27.19 Aligned_cols=29 Identities=24% Similarity=0.177 Sum_probs=21.3
Q ss_pred HHHHHHHHhC--CCCEEEEeeccCCCcccee
Q psy15017 57 AASLVAGSLE--GYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 57 ~~p~v~~~~~--g~n~~v~ayG~t~sGKt~T 85 (97)
+..+.+.+.+ .....|.-+|..|.|||..
T Consensus 5 ~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~L 35 (287)
T PF00931_consen 5 IEKLKDWLLDNSNEVRVVAIVGMGGIGKTTL 35 (287)
T ss_dssp HHHHHHHHHTTTTSSEEEEEEESTTSSHHHH
T ss_pred HHHHHHHhhCCCCCeEEEEEEcCCcCCccee
Confidence 3445566665 5677788899999999854
No 177
>PRK06696 uridine kinase; Validated
Probab=73.94 E-value=5.2 Score=26.93 Aligned_cols=26 Identities=31% Similarity=0.203 Sum_probs=17.0
Q ss_pred HHHHHHh---CCCCEEEEeeccCCCccce
Q psy15017 59 SLVAGSL---EGYNATILAYGQTGSGKTY 84 (97)
Q Consensus 59 p~v~~~~---~g~n~~v~ayG~t~sGKt~ 84 (97)
.+.+.++ .+....|..-|.+|||||.
T Consensus 9 ~la~~~~~~~~~~~~iI~I~G~sgsGKST 37 (223)
T PRK06696 9 ELAEHILTLNLTRPLRVAIDGITASGKTT 37 (223)
T ss_pred HHHHHHHHhCCCCceEEEEECCCCCCHHH
Confidence 3444444 3445556666999999986
No 178
>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=73.71 E-value=4.1 Score=27.08 Aligned_cols=28 Identities=29% Similarity=0.405 Sum_probs=20.4
Q ss_pred HHHHHHhC-CC--CEEEEeeccCCCccceee
Q psy15017 59 SLVAGSLE-GY--NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 59 p~v~~~~~-g~--n~~v~ayG~t~sGKt~T~ 86 (97)
+-++.++. |. ...+..+|.+|+|||...
T Consensus 6 ~~LD~~l~GGi~~g~i~~i~G~~GsGKT~l~ 36 (218)
T cd01394 6 KGLDELLGGGVERGTVTQVYGPPGTGKTNIA 36 (218)
T ss_pred hHHHHHhcCCccCCeEEEEECCCCCCHHHHH
Confidence 45677775 43 455778999999998653
No 179
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=73.52 E-value=4 Score=32.31 Aligned_cols=37 Identities=24% Similarity=0.217 Sum_probs=23.6
Q ss_pred CCCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCcccee
Q psy15017 45 MADVQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 45 ~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T 85 (97)
....|+.....+. .++-++....++..|.||||||-.
T Consensus 262 lt~~Q~~ai~~I~----~d~~~~~~~~~Ll~~~TGSGKT~v 298 (681)
T PRK10917 262 LTGAQKRVVAEIL----ADLASPKPMNRLLQGDVGSGKTVV 298 (681)
T ss_pred CCHHHHHHHHHHH----HhhhccCCceEEEECCCCCcHHHH
Confidence 3445666555543 333345555677889999999964
No 180
>TIGR03744 traC_PFL_4706 conjugative transfer ATPase, PFL_4706 family. Members of this protein family are predicted ATP-binding proteins apparently associated with DNA conjugal transfer. Members are found both in plasmids and in bacterial chromosomal regions that appear to derive from integrative elements such as conjugative transposons. More distant homologs, outside the scope of this family, include type IV secretion/conjugal transfer proteins such as TraC, VirB4 and TrsE. The granularity of this protein family definition is chosen so as to represent one distinctive clade and act as a marker through which to define and recognize the class of mobile element it serves.
Probab=73.47 E-value=1.2 Score=36.37 Aligned_cols=19 Identities=47% Similarity=0.716 Sum_probs=15.9
Q ss_pred CCEEEEeeccCCCccceee
Q psy15017 68 YNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 68 ~n~~v~ayG~t~sGKt~T~ 86 (97)
.|.-.+.+|.||||||.+|
T Consensus 474 ~n~n~~I~G~TGSGKS~l~ 492 (893)
T TIGR03744 474 KNAHLLILGPTGAGKSATL 492 (893)
T ss_pred CcccEEEECCCCCCHHHHH
Confidence 3666778999999999887
No 181
>PF00025 Arf: ADP-ribosylation factor family The prints entry specific to Sar1 proteins The Prosite entry specific to Sar1 proteins; InterPro: IPR006689 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. This entry represents a branch of the small GTPase superfamily that includes the ADP ribosylation factor Arf, Arl (Arf-like), Arp (Arf-related proteins) and the remotely related Sar (Secretion-associated and Ras-related) proteins. Arf proteins are major regulators of vesicle biogenesis in intracellular traffic []. They cycle between inactive GDP-bound and active GTP-bound forms that bind selectively to effectors. The classical structural GDP/GTP switch is characterised by conformational changes at the so-called switch 1 and switch 2 regions, which bind tightly to the gamma-phosphate of GTP but poorly or not at all to the GDP nucleotide. Structural studies of Arf1 and Arf6 have revealed that although these proteins feature the switch 1 and 2 conformational changes, they depart from other small GTP-binding proteins in that they use an additional, unique switch to propagate structural information from one side of the protein to the other. The GDP/GTP structural cycles of human Arf1 and Arf6 feature a unique conformational change that affects the beta2-beta3 strands connecting switch 1 and switch 2 (interswitch) and also the amphipathic helical N terminus. In GDP-bound Arf1 and Arf6, the interswitch is retracted and forms a pocket to which the N-terminal helix binds, the latter serving as a molecular hasp to maintain the inactive conformation. In the GTP-bound form of these proteins, the interswitch undergoes a two-residue register shift that pulls switch 1 and switch 2 up, restoring an active conformation that can bind GTP. In this conformation, the interswitch projects out of the protein and extrudes the N-terminal hasp by occluding its binding pocket.; GO: 0005525 GTP binding; PDB: 2H57_B 2W83_B 3N5C_B 2J5X_A 3LVR_E 2BAO_A 3LVQ_E 2A5F_A 3PCR_B 1E0S_A ....
Probab=73.47 E-value=3.6 Score=26.59 Aligned_cols=27 Identities=30% Similarity=0.366 Sum_probs=20.8
Q ss_pred HHHHHhC-CCCEEEEeeccCCCccceee
Q psy15017 60 LVAGSLE-GYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 60 ~v~~~~~-g~n~~v~ayG~t~sGKt~T~ 86 (97)
++..++. .....|+..|..+||||.-+
T Consensus 4 ~~~~~~~~~~~~~ililGl~~sGKTtll 31 (175)
T PF00025_consen 4 VLSKLKSKKKEIKILILGLDGSGKTTLL 31 (175)
T ss_dssp HHHHCTTTTSEEEEEEEESTTSSHHHHH
T ss_pred HHHHhcccCcEEEEEEECCCccchHHHH
Confidence 4556664 67778999999999998543
No 182
>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=72.89 E-value=8.5 Score=26.79 Aligned_cols=41 Identities=27% Similarity=0.266 Sum_probs=26.8
Q ss_pred ecCCCcHHHHHHHHHHHHHHHHhC-C-CCEEEEeeccCCCccce
Q psy15017 43 FDMADVQTTIYELCAASLVAGSLE-G-YNATILAYGQTGSGKTY 84 (97)
Q Consensus 43 f~~~~~q~~v~~~~~~p~v~~~~~-g-~n~~v~ayG~t~sGKt~ 84 (97)
|++-..|+.+-.. ...+++.+.. + .-..++-||..|.|||.
T Consensus 23 L~efiGQ~~l~~~-l~i~i~aa~~r~~~l~h~lf~GPPG~GKTT 65 (233)
T PF05496_consen 23 LDEFIGQEHLKGN-LKILIRAAKKRGEALDHMLFYGPPGLGKTT 65 (233)
T ss_dssp CCCS-S-HHHHHH-HHHHHHHHHCTTS---EEEEESSTTSSHHH
T ss_pred HHHccCcHHHHhh-hHHHHHHHHhcCCCcceEEEECCCccchhH
Confidence 5666789999876 4556766653 2 23357789999999974
No 183
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=72.73 E-value=1.5 Score=32.38 Aligned_cols=18 Identities=39% Similarity=0.671 Sum_probs=14.2
Q ss_pred CEEEEeeccCCCccceee
Q psy15017 69 NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~T~ 86 (97)
...|+-||.+|+|||+..
T Consensus 165 p~gvLL~GppGtGKT~lA 182 (389)
T PRK03992 165 PKGVLLYGPPGTGKTLLA 182 (389)
T ss_pred CCceEEECCCCCChHHHH
Confidence 345777999999999754
No 184
>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]
Probab=72.71 E-value=2.8 Score=31.06 Aligned_cols=20 Identities=40% Similarity=0.632 Sum_probs=18.1
Q ss_pred hCCCCEEEEeeccCCCccce
Q psy15017 65 LEGYNATILAYGQTGSGKTY 84 (97)
Q Consensus 65 ~~g~n~~v~ayG~t~sGKt~ 84 (97)
-.|+..+|+..|++|+|||.
T Consensus 19 k~Gi~f~im~~G~sG~GKtt 38 (373)
T COG5019 19 KKGIDFTIMVVGESGLGKTT 38 (373)
T ss_pred hcCCceEEEEecCCCCchhH
Confidence 36999999999999999975
No 185
>PF12774 AAA_6: Hydrolytic ATP binding site of dynein motor region D1; PDB: 3VKH_A 3VKG_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A.
Probab=72.47 E-value=3.3 Score=28.54 Aligned_cols=14 Identities=43% Similarity=0.605 Sum_probs=12.3
Q ss_pred EeeccCCCccceee
Q psy15017 73 LAYGQTGSGKTYTM 86 (97)
Q Consensus 73 ~ayG~t~sGKt~T~ 86 (97)
..+|.+|+|||.|+
T Consensus 36 ~~~GpagtGKteti 49 (231)
T PF12774_consen 36 ALSGPAGTGKTETI 49 (231)
T ss_dssp EEESSTTSSHHHHH
T ss_pred CCcCCCCCCchhHH
Confidence 35899999999987
No 186
>TIGR02688 conserved hypothetical protein TIGR02688. Members of this family are uncharacterized proteins sporadically distributed in bacteria and archaea, about 470 amino acids in length. Several members of this family appear in public databases with annotation as ATP-dependent protease La, despite the lack of similarity to families TIGR00763 (ATP-dependent protease La) or pfam02190 (ATP-dependent protease La (LON) domain). This protein is repeatedly found downstream of another uncharacterized protein of about 880 amino acids in length, described by model TIGR02687.
Probab=72.36 E-value=3.8 Score=31.10 Aligned_cols=25 Identities=32% Similarity=0.541 Sum_probs=17.4
Q ss_pred HHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 60 LVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 60 ~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
++..+=.++|.+ -.|.+|+||||.-
T Consensus 202 l~~fve~~~Nli--~lGp~GTGKThla 226 (449)
T TIGR02688 202 LLPLVEPNYNLI--ELGPKGTGKSYIY 226 (449)
T ss_pred hHHHHhcCCcEE--EECCCCCCHHHHH
Confidence 333444566654 5899999999875
No 187
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=72.09 E-value=2.4 Score=23.34 Aligned_cols=13 Identities=46% Similarity=0.644 Sum_probs=10.1
Q ss_pred EeeccCCCcccee
Q psy15017 73 LAYGQTGSGKTYT 85 (97)
Q Consensus 73 ~ayG~t~sGKt~T 85 (97)
+-.|.+|||||.-
T Consensus 27 li~G~nGsGKSTl 39 (62)
T PF13555_consen 27 LITGPNGSGKSTL 39 (62)
T ss_pred EEECCCCCCHHHH
Confidence 3469999999853
No 188
>COG5022 Myosin heavy chain [Cytoskeleton]
Probab=72.06 E-value=5.3 Score=34.43 Aligned_cols=34 Identities=32% Similarity=0.452 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHHHh-CCCCEEEEeeccCCCccce
Q psy15017 50 TTIYELCAASLVAGSL-EGYNATILAYGQTGSGKTY 84 (97)
Q Consensus 50 ~~v~~~~~~p~v~~~~-~g~n~~v~ayG~t~sGKt~ 84 (97)
..||. ++..+-..++ ++.|.||+.-|.+|+|||-
T Consensus 133 PHvfA-IAe~aY~~lls~~eNQtIiISGESGAGKTe 167 (1463)
T COG5022 133 PHVFA-IAEEAYRNLLSEKENQTIIISGESGAGKTE 167 (1463)
T ss_pred chHHH-HHHHHHHHHHhcCCCceEEEecCCCCCchH
Confidence 44553 3455666676 5779999999999999984
No 189
>KOG0340|consensus
Probab=71.96 E-value=2.5 Score=31.54 Aligned_cols=26 Identities=35% Similarity=0.516 Sum_probs=20.8
Q ss_pred HHHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 59 SLVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 59 p~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
-+|..+|+|.+|. -...||||||.-.
T Consensus 36 ~cIpkILeGrdci--g~AkTGsGKT~AF 61 (442)
T KOG0340|consen 36 ACIPKILEGRDCI--GCAKTGSGKTAAF 61 (442)
T ss_pred hhhHHHhcccccc--cccccCCCcchhh
Confidence 4788999999973 5679999998643
No 190
>TIGR03158 cas3_cyano CRISPR-associated helicase, Cyano-type. subtype of CRISPR/Cas locus, found in several species of Cyanobacteria and several archaeal species. It contains helicase motifs and appears to represent the Cas3 protein of the Cyano subtype of CRISPR/Cas system.
Probab=71.74 E-value=4 Score=29.63 Aligned_cols=25 Identities=24% Similarity=0.258 Sum_probs=19.3
Q ss_pred HHHHhCCCCEEEEeeccCCCcccee
Q psy15017 61 VAGSLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 61 v~~~~~g~n~~v~ayG~t~sGKt~T 85 (97)
++.+.++.+..++.-..||||||..
T Consensus 6 ~~~~~~~~~~~~~i~apTGsGKT~~ 30 (357)
T TIGR03158 6 FEALQSKDADIIFNTAPTGAGKTLA 30 (357)
T ss_pred HHHHHcCCCCEEEEECCCCCCHHHH
Confidence 4556777776677779999999975
No 191
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=71.58 E-value=7.2 Score=29.48 Aligned_cols=19 Identities=47% Similarity=0.524 Sum_probs=15.5
Q ss_pred CCEEEEeeccCCCccceee
Q psy15017 68 YNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 68 ~n~~v~ayG~t~sGKt~T~ 86 (97)
....++-+|.+|+|||.|.
T Consensus 94 ~p~vI~lvG~~GsGKTTta 112 (437)
T PRK00771 94 KPQTIMLVGLQGSGKTTTA 112 (437)
T ss_pred CCeEEEEECCCCCcHHHHH
Confidence 3456777899999999886
No 192
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=71.25 E-value=1.7 Score=32.62 Aligned_cols=16 Identities=44% Similarity=0.621 Sum_probs=13.2
Q ss_pred EEEeeccCCCccceee
Q psy15017 71 TILAYGQTGSGKTYTM 86 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T~ 86 (97)
.+.-.|.+|+|||+|+
T Consensus 223 ~i~~vGptGvGKTTt~ 238 (424)
T PRK05703 223 VVALVGPTGVGKTTTL 238 (424)
T ss_pred EEEEECCCCCCHHHHH
Confidence 4555699999999987
No 193
>TIGR03238 dnd_assoc_3 dnd system-associated protein 3. cereus E33L, Hahella chejuensis KCTC 2396, Pseudoalteromonas haloplanktis TAC12, and Escherichia coli B7A.
Probab=71.12 E-value=5.2 Score=30.85 Aligned_cols=18 Identities=22% Similarity=0.549 Sum_probs=14.5
Q ss_pred EEEEeeccCCCccceeec
Q psy15017 70 ATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 70 ~~v~ayG~t~sGKt~T~~ 87 (97)
..++-.|.+|||||+.|-
T Consensus 33 Eiv~L~G~SGsGKSTLLr 50 (504)
T TIGR03238 33 SLLFLCGSSGDGKSEILA 50 (504)
T ss_pred CEEEEECCCCCCHHHHHh
Confidence 345668999999998884
No 194
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=71.09 E-value=6.2 Score=28.45 Aligned_cols=18 Identities=44% Similarity=0.564 Sum_probs=14.1
Q ss_pred CEEEEeeccCCCccceee
Q psy15017 69 NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~T~ 86 (97)
...+.-.|.+|+|||.|+
T Consensus 114 ~~vi~lvGpnGsGKTTt~ 131 (318)
T PRK10416 114 PFVILVVGVNGVGKTTTI 131 (318)
T ss_pred CeEEEEECCCCCcHHHHH
Confidence 345566699999999886
No 195
>PHA02244 ATPase-like protein
Probab=71.01 E-value=6.5 Score=29.31 Aligned_cols=22 Identities=23% Similarity=0.164 Sum_probs=15.4
Q ss_pred HHhCCCCEEEEeeccCCCccceee
Q psy15017 63 GSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 63 ~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
.+-.+.+..+ .|.+|+|||+-.
T Consensus 115 ~l~~~~PVLL--~GppGtGKTtLA 136 (383)
T PHA02244 115 IVNANIPVFL--KGGAGSGKNHIA 136 (383)
T ss_pred HHhcCCCEEE--ECCCCCCHHHHH
Confidence 3445666544 899999999754
No 196
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=70.84 E-value=1.7 Score=31.57 Aligned_cols=17 Identities=41% Similarity=0.728 Sum_probs=14.1
Q ss_pred EEEEeeccCCCccceee
Q psy15017 70 ATILAYGQTGSGKTYTM 86 (97)
Q Consensus 70 ~~v~ayG~t~sGKt~T~ 86 (97)
..++-||.+|+|||+..
T Consensus 157 ~gvLL~GppGtGKT~la 173 (364)
T TIGR01242 157 KGVLLYGPPGTGKTLLA 173 (364)
T ss_pred ceEEEECCCCCCHHHHH
Confidence 34778999999999765
No 197
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=70.83 E-value=1.9 Score=27.61 Aligned_cols=17 Identities=35% Similarity=0.638 Sum_probs=13.0
Q ss_pred EEEEeeccCCCccceee
Q psy15017 70 ATILAYGQTGSGKTYTM 86 (97)
Q Consensus 70 ~~v~ayG~t~sGKt~T~ 86 (97)
...+-||.+|+|||..|
T Consensus 20 g~~vi~G~Ng~GKStil 36 (202)
T PF13476_consen 20 GLNVIYGPNGSGKSTIL 36 (202)
T ss_dssp EEEEEEESTTSSHHHHH
T ss_pred CcEEEECCCCCCHHHHH
Confidence 34456899999998654
No 198
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=70.75 E-value=6 Score=29.90 Aligned_cols=16 Identities=38% Similarity=0.756 Sum_probs=13.0
Q ss_pred EEEeeccCCCccceee
Q psy15017 71 TILAYGQTGSGKTYTM 86 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T~ 86 (97)
.++-||.+|+|||...
T Consensus 219 gVLL~GPPGTGKT~LA 234 (438)
T PTZ00361 219 GVILYGPPGTGKTLLA 234 (438)
T ss_pred EEEEECCCCCCHHHHH
Confidence 3566899999998765
No 199
>PTZ00110 helicase; Provisional
Probab=70.60 E-value=4.2 Score=31.32 Aligned_cols=24 Identities=33% Similarity=0.410 Sum_probs=18.7
Q ss_pred HHHHHhCCCCEEEEeeccCCCcccee
Q psy15017 60 LVAGSLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 60 ~v~~~~~g~n~~v~ayG~t~sGKt~T 85 (97)
.+..+++|.+. ++...||||||..
T Consensus 160 aip~~l~G~dv--I~~ApTGSGKTla 183 (545)
T PTZ00110 160 GWPIALSGRDM--IGIAETGSGKTLA 183 (545)
T ss_pred HHHHHhcCCCE--EEEeCCCChHHHH
Confidence 45678899875 4568999999975
No 200
>TIGR01389 recQ ATP-dependent DNA helicase RecQ. The ATP-dependent DNA helicase RecQ of E. coli is about 600 residues long. This model represents bacterial proteins with a high degree of similarity in domain architecture and in primary sequence to E. coli RecQ. The model excludes eukaryotic and archaeal proteins with RecQ-like regions, as well as more distantly related bacterial helicases related to RecQ.
Probab=70.35 E-value=4.5 Score=31.31 Aligned_cols=24 Identities=29% Similarity=0.529 Sum_probs=18.0
Q ss_pred HHHHHhCCCCEEEEeeccCCCcccee
Q psy15017 60 LVAGSLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 60 ~v~~~~~g~n~~v~ayG~t~sGKt~T 85 (97)
.++.+++|.+. ++-..||+|||..
T Consensus 21 ~i~~il~g~dv--lv~~PTG~GKTl~ 44 (591)
T TIGR01389 21 IISHVLDGRDV--LVVMPTGGGKSLC 44 (591)
T ss_pred HHHHHHcCCCE--EEEcCCCccHhHH
Confidence 45567788874 5567999999865
No 201
>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=70.29 E-value=2.7 Score=30.58 Aligned_cols=30 Identities=33% Similarity=0.392 Sum_probs=20.8
Q ss_pred HHHHHHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 56 CAASLVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 56 ~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
....++..++.+. ..++.-|.+|||||..|
T Consensus 166 ~~~~~L~~~v~~~-~~ili~G~tGsGKTTll 195 (340)
T TIGR03819 166 GVARLLRAIVAAR-LAFLISGGTGSGKTTLL 195 (340)
T ss_pred HHHHHHHHHHhCC-CeEEEECCCCCCHHHHH
Confidence 3445566666654 45667799999998866
No 202
>PRK14974 cell division protein FtsY; Provisional
Probab=70.20 E-value=8.9 Score=27.98 Aligned_cols=18 Identities=39% Similarity=0.569 Sum_probs=14.6
Q ss_pred CEEEEeeccCCCccceee
Q psy15017 69 NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~T~ 86 (97)
...+.-.|.+|+|||.|+
T Consensus 140 ~~vi~~~G~~GvGKTTti 157 (336)
T PRK14974 140 PVVIVFVGVNGTGKTTTI 157 (336)
T ss_pred CeEEEEEcCCCCCHHHHH
Confidence 456777799999999876
No 203
>TIGR01817 nifA Nif-specific regulatory protein. This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.
Probab=70.12 E-value=3.7 Score=31.35 Aligned_cols=44 Identities=20% Similarity=0.231 Sum_probs=28.1
Q ss_pred eeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCcccee
Q psy15017 36 SFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 36 ~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T 85 (97)
.+.|+.+.+.+..-..+.+.+ ..+ ...+..|+-.|.+|+||++.
T Consensus 192 ~~~~~~liG~s~~~~~~~~~~-----~~~-a~~~~pvli~Ge~GtGK~~l 235 (534)
T TIGR01817 192 SGKEDGIIGKSPAMRQVVDQA-----RVV-ARSNSTVLLRGESGTGKELI 235 (534)
T ss_pred cCccCceEECCHHHHHHHHHH-----HHH-hCcCCCEEEECCCCccHHHH
Confidence 467788777665444444332 222 24455677899999999764
No 204
>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=70.06 E-value=4.5 Score=27.08 Aligned_cols=28 Identities=29% Similarity=0.342 Sum_probs=20.1
Q ss_pred HHHHHHhC-CC--CEEEEeeccCCCccceee
Q psy15017 59 SLVAGSLE-GY--NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 59 p~v~~~~~-g~--n~~v~ayG~t~sGKt~T~ 86 (97)
+-++.++. |. ..++..+|.+|+|||...
T Consensus 7 ~~LD~~l~GGi~~G~~~~i~G~~G~GKT~l~ 37 (229)
T TIGR03881 7 EGLDKLLEGGIPRGFFVAVTGEPGTGKTIFC 37 (229)
T ss_pred hhHHHhhcCCCcCCeEEEEECCCCCChHHHH
Confidence 44566664 43 567778999999998754
No 205
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=69.85 E-value=1.9 Score=33.68 Aligned_cols=18 Identities=33% Similarity=0.453 Sum_probs=14.9
Q ss_pred EEEEeeccCCCccceeec
Q psy15017 70 ATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 70 ~~v~ayG~t~sGKt~T~~ 87 (97)
.-++..|..|||||.||.
T Consensus 15 ~~~~V~Ag~GSGKT~~L~ 32 (664)
T TIGR01074 15 GPCLVLAGAGSGKTRVIT 32 (664)
T ss_pred CCEEEEecCCCCHHHHHH
Confidence 346788999999999984
No 206
>cd01127 TrwB Bacterial conjugation protein TrwB, ATP binding domain. TrwB is a homohexamer encoded by conjugative plasmids in Gram-negative bacteria. TrwB also has an all alpha domain which has been hypothesized to be responsible for DNA binding. TrwB is a component of Type IV secretion and is responsible for the horizontal transfer of DNA between bacteria.
Probab=69.77 E-value=1.7 Score=32.24 Aligned_cols=17 Identities=41% Similarity=0.645 Sum_probs=13.9
Q ss_pred EEEEeeccCCCccceee
Q psy15017 70 ATILAYGQTGSGKTYTM 86 (97)
Q Consensus 70 ~~v~ayG~t~sGKt~T~ 86 (97)
--++.+|.||||||..|
T Consensus 43 ~h~~i~g~tGsGKt~~i 59 (410)
T cd01127 43 AHTMIIGTTGTGKTTQI 59 (410)
T ss_pred ccEEEEcCCCCCHHHHH
Confidence 34678999999999765
No 207
>PRK04195 replication factor C large subunit; Provisional
Probab=69.50 E-value=4.1 Score=30.83 Aligned_cols=26 Identities=35% Similarity=0.575 Sum_probs=17.9
Q ss_pred HHHHhCCC-CEEEEeeccCCCccceee
Q psy15017 61 VAGSLEGY-NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 61 v~~~~~g~-n~~v~ayG~t~sGKt~T~ 86 (97)
+....+|. .-.++-||..|+|||+..
T Consensus 30 l~~~~~g~~~~~lLL~GppG~GKTtla 56 (482)
T PRK04195 30 IESWLKGKPKKALLLYGPPGVGKTSLA 56 (482)
T ss_pred HHHHhcCCCCCeEEEECCCCCCHHHHH
Confidence 33333443 446778999999999765
No 208
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=69.17 E-value=5.6 Score=31.19 Aligned_cols=36 Identities=22% Similarity=0.207 Sum_probs=21.9
Q ss_pred CCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCcccee
Q psy15017 46 ADVQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 46 ~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T 85 (97)
...|+.....+. .++-.......+..|.||||||..
T Consensus 237 t~~Q~~ai~~I~----~~~~~~~~~~~Ll~g~TGSGKT~v 272 (630)
T TIGR00643 237 TRAQKRVVKEIL----QDLKSDVPMNRLLQGDVGSGKTLV 272 (630)
T ss_pred CHHHHHHHHHHH----HHhccCCCccEEEECCCCCcHHHH
Confidence 345655555543 333334444567789999999964
No 209
>KOG0926|consensus
Probab=69.13 E-value=3.1 Score=34.22 Aligned_cols=20 Identities=40% Similarity=0.634 Sum_probs=15.7
Q ss_pred CCCEEEEeeccCCCccceee
Q psy15017 67 GYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 67 g~n~~v~ayG~t~sGKt~T~ 86 (97)
..|-.++..|+||||||.-+
T Consensus 269 n~n~vvIIcGeTGsGKTTQv 288 (1172)
T KOG0926|consen 269 NENPVVIICGETGSGKTTQV 288 (1172)
T ss_pred hcCCeEEEecCCCCCccccc
Confidence 34567788899999998654
No 210
>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=69.01 E-value=5.8 Score=26.35 Aligned_cols=29 Identities=28% Similarity=0.359 Sum_probs=20.6
Q ss_pred HHHHHHHhC-CC--CEEEEeeccCCCccceee
Q psy15017 58 ASLVAGSLE-GY--NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 58 ~p~v~~~~~-g~--n~~v~ayG~t~sGKt~T~ 86 (97)
-+.++.++. |. ...+.-+|.+|+|||..+
T Consensus 5 ~~~lD~~l~GG~~~g~v~~I~G~~GsGKT~l~ 36 (226)
T cd01393 5 SKALDELLGGGIPTGRITEIFGEFGSGKTQLC 36 (226)
T ss_pred cHHHHHHhCCCCcCCcEEEEeCCCCCChhHHH
Confidence 356777775 33 445667899999998754
No 211
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=68.80 E-value=5.3 Score=28.50 Aligned_cols=17 Identities=41% Similarity=0.638 Sum_probs=13.9
Q ss_pred EEEEeeccCCCccceee
Q psy15017 70 ATILAYGQTGSGKTYTM 86 (97)
Q Consensus 70 ~~v~ayG~t~sGKt~T~ 86 (97)
..++-||..|+|||+..
T Consensus 52 ~~~ll~GppG~GKT~la 68 (328)
T PRK00080 52 DHVLLYGPPGLGKTTLA 68 (328)
T ss_pred CcEEEECCCCccHHHHH
Confidence 35677999999999765
No 212
>KOG0987|consensus
Probab=68.71 E-value=6.9 Score=30.28 Aligned_cols=34 Identities=26% Similarity=0.589 Sum_probs=24.6
Q ss_pred cHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 48 VQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 48 ~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
.|..+|+. ++..+.+..-..+| ||..|+||||-.
T Consensus 121 eqk~v~d~----~~~~v~~~~g~~ff-~g~~gtgKt~l~ 154 (540)
T KOG0987|consen 121 EQKRVYDA----ILEAVENNLGGVFF-YGFGGTGKTYLL 154 (540)
T ss_pred HHHHHHHH----HHHHHhccccceee-eccCCccceeeH
Confidence 67888873 34455566666777 999999999853
No 213
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=68.47 E-value=6.8 Score=29.67 Aligned_cols=17 Identities=53% Similarity=0.655 Sum_probs=14.2
Q ss_pred EEEEeeccCCCccceee
Q psy15017 70 ATILAYGQTGSGKTYTM 86 (97)
Q Consensus 70 ~~v~ayG~t~sGKt~T~ 86 (97)
..|.-.|.+|+|||.|+
T Consensus 242 ~vI~LVGptGvGKTTTi 258 (436)
T PRK11889 242 QTIALIGPTGVGKTTTL 258 (436)
T ss_pred cEEEEECCCCCcHHHHH
Confidence 45667799999999987
No 214
>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
Probab=68.33 E-value=7.2 Score=29.33 Aligned_cols=51 Identities=16% Similarity=0.285 Sum_probs=31.1
Q ss_pred eeeeccEEecCCCcHHHHHHHHHHHHHHHHhC----CCCEEEEeeccCCCcccee
Q psy15017 35 KSFTFDYVFDMADVQTTIYELCAASLVAGSLE----GYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 35 ~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~----g~n~~v~ayG~t~sGKt~T 85 (97)
+++.|+.+.+.-.-...+.+..+..+....+. ...--+.-||..|+|||+.
T Consensus 110 ~~~~f~~~~g~~~~~p~f~dk~~~hi~kn~l~~~~ik~PlgllL~GPPGcGKTll 164 (413)
T PLN00020 110 RTRSFDNLVGGYYIAPAFMDKVAVHIAKNFLALPNIKVPLILGIWGGKGQGKSFQ 164 (413)
T ss_pred hhcchhhhcCccccCHHHHHHHHHHHHhhhhhccCCCCCeEEEeeCCCCCCHHHH
Confidence 34556655554444455555555555555542 3334466799999999975
No 215
>TIGR00929 VirB4_CagE type IV secretion/conjugal transfer ATPase, VirB4 family. Type IV secretion systems are found in Gram-negative pathogens. They export proteins, DNA, or complexes in different systems and are related to plasmid conjugation systems. This model represents related ATPases that include VirB4 in Agrobacterium tumefaciens (DNA export) CagE in Helicobacter pylori (protein export) and plasmid TraB (conjugation).
Probab=68.26 E-value=2 Score=34.14 Aligned_cols=18 Identities=44% Similarity=0.639 Sum_probs=15.4
Q ss_pred CEEEEeeccCCCccceee
Q psy15017 69 NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~T~ 86 (97)
|.-.+..|.+|||||+++
T Consensus 434 ~~n~~I~G~tGsGKS~~~ 451 (785)
T TIGR00929 434 LGHTLIFGPTGSGKTTLL 451 (785)
T ss_pred CceEEEECCCCCCHHHHH
Confidence 566778999999999887
No 216
>PRK13767 ATP-dependent helicase; Provisional
Probab=68.18 E-value=4.9 Score=32.83 Aligned_cols=23 Identities=43% Similarity=0.472 Sum_probs=17.2
Q ss_pred HHHHhCCCCEEEEeeccCCCcccee
Q psy15017 61 VAGSLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 61 v~~~~~g~n~~v~ayG~t~sGKt~T 85 (97)
++.+++|.|..+ -..||||||..
T Consensus 41 i~~il~g~nvli--~APTGSGKTla 63 (876)
T PRK13767 41 IPLIHEGKNVLI--SSPTGSGKTLA 63 (876)
T ss_pred HHHHHcCCCEEE--ECCCCCcHHHH
Confidence 345678888655 56999999975
No 217
>PRK01172 ski2-like helicase; Provisional
Probab=68.10 E-value=4.7 Score=31.72 Aligned_cols=22 Identities=27% Similarity=0.305 Sum_probs=16.0
Q ss_pred HHHhCCCCEEEEeeccCCCcccee
Q psy15017 62 AGSLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 62 ~~~~~g~n~~v~ayG~t~sGKt~T 85 (97)
+.+++|.| ++..+.||||||.-
T Consensus 32 ~~l~~~~n--vlv~apTGSGKTl~ 53 (674)
T PRK01172 32 EQLRKGEN--VIVSVPTAAGKTLI 53 (674)
T ss_pred HHHhcCCc--EEEECCCCchHHHH
Confidence 34567776 45568999999963
No 218
>TIGR03817 DECH_helic helicase/secretion neighborhood putative DEAH-box helicase. A conserved gene neighborhood widely spread in the Actinobacteria contains this uncharacterized DEAH-box family helicase encoded convergently towards an operon of genes for protein homologous to type II secretion and pilus formation proteins. The context suggests that this helicase may play a role in conjugal transfer of DNA.
Probab=68.06 E-value=5 Score=32.20 Aligned_cols=24 Identities=21% Similarity=0.220 Sum_probs=18.2
Q ss_pred HHHHHhCCCCEEEEeeccCCCcccee
Q psy15017 60 LVAGSLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 60 ~v~~~~~g~n~~v~ayG~t~sGKt~T 85 (97)
.++.+++|.|..+ --.||||||..
T Consensus 44 ai~~il~G~nvvv--~apTGSGKTla 67 (742)
T TIGR03817 44 AAELAHAGRHVVV--ATGTASGKSLA 67 (742)
T ss_pred HHHHHHCCCCEEE--ECCCCCcHHHH
Confidence 4556789998655 46899999864
No 219
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=67.97 E-value=2.9 Score=31.50 Aligned_cols=41 Identities=22% Similarity=0.278 Sum_probs=28.9
Q ss_pred ecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCccce
Q psy15017 43 FDMADVQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTY 84 (97)
Q Consensus 43 f~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~ 84 (97)
+++-..|+.+... ..++-.-+-.|.-.+++-||..|+|||.
T Consensus 23 lde~vGQ~HLlg~-~~~lrr~v~~~~l~SmIl~GPPG~GKTT 63 (436)
T COG2256 23 LDEVVGQEHLLGE-GKPLRRAVEAGHLHSMILWGPPGTGKTT 63 (436)
T ss_pred HHHhcChHhhhCC-CchHHHHHhcCCCceeEEECCCCCCHHH
Confidence 4455578887755 3444444446777788899999999984
No 220
>KOG3859|consensus
Probab=67.87 E-value=3.3 Score=30.11 Aligned_cols=30 Identities=40% Similarity=0.570 Sum_probs=23.0
Q ss_pred HHHHHHHH-hCCCCEEEEeeccCCCccceee
Q psy15017 57 AASLVAGS-LEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 57 ~~p~v~~~-~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
-.++|+.. -.|+...|++-|.||.||+.-|
T Consensus 29 PdQLV~ksv~~GF~FNilCvGETg~GKsTLm 59 (406)
T KOG3859|consen 29 PDQLVNKSVSQGFCFNILCVGETGLGKSTLM 59 (406)
T ss_pred hHHHHHHHHhcCceEEEEEeccCCccHHHHH
Confidence 33455554 4799999999999999998644
No 221
>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=67.81 E-value=3.7 Score=28.79 Aligned_cols=30 Identities=37% Similarity=0.476 Sum_probs=21.3
Q ss_pred HHhCCCCEEE------EeeccCCCccc---eeecCCCCC
Q psy15017 63 GSLEGYNATI------LAYGQTGSGKT---YTMGTGTFS 92 (97)
Q Consensus 63 ~~~~g~n~~v------~ayG~t~sGKt---~T~~G~~~~ 92 (97)
.+++|.|-.| --+|.+||||+ ++++|.+..
T Consensus 18 eILkgvnL~v~~GEvhaiMGPNGsGKSTLa~~i~G~p~Y 56 (251)
T COG0396 18 EILKGVNLTVKEGEVHAIMGPNGSGKSTLAYTIMGHPKY 56 (251)
T ss_pred hhhcCcceeEcCCcEEEEECCCCCCHHHHHHHHhCCCCc
Confidence 4566666665 34799999995 677787643
No 222
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=67.65 E-value=3.5 Score=30.22 Aligned_cols=20 Identities=40% Similarity=0.414 Sum_probs=16.8
Q ss_pred CCCEEEEeeccCCCccceee
Q psy15017 67 GYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 67 g~n~~v~ayG~t~sGKt~T~ 86 (97)
+....++.-|.+|+|||.|+
T Consensus 137 ~~p~Vil~vGVNG~GKTTTI 156 (340)
T COG0552 137 KKPFVILFVGVNGVGKTTTI 156 (340)
T ss_pred CCcEEEEEEecCCCchHhHH
Confidence 45667778899999999997
No 223
>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=67.42 E-value=2.8 Score=25.57 Aligned_cols=16 Identities=38% Similarity=0.515 Sum_probs=12.3
Q ss_pred EEEeeccCCCccceee
Q psy15017 71 TILAYGQTGSGKTYTM 86 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T~ 86 (97)
.+.-.|.+|||||..+
T Consensus 17 ~v~I~GpSGsGKSTLl 32 (107)
T cd00820 17 GVLITGDSGIGKTELA 32 (107)
T ss_pred EEEEEcCCCCCHHHHH
Confidence 3445699999999765
No 224
>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=67.41 E-value=1.8 Score=31.86 Aligned_cols=15 Identities=60% Similarity=0.842 Sum_probs=11.5
Q ss_pred EEeeccCCCccceee
Q psy15017 72 ILAYGQTGSGKTYTM 86 (97)
Q Consensus 72 v~ayG~t~sGKt~T~ 86 (97)
++..|.+|||||..|
T Consensus 18 ~li~G~~GsGKT~~i 32 (386)
T PF10412_consen 18 ILIIGATGSGKTQAI 32 (386)
T ss_dssp EEEEE-TTSSHHHHH
T ss_pred EEEECCCCCCHHHHH
Confidence 557899999999755
No 225
>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=67.28 E-value=7.5 Score=25.29 Aligned_cols=19 Identities=32% Similarity=0.573 Sum_probs=14.8
Q ss_pred CCCCEEEEeeccCCCccce
Q psy15017 66 EGYNATILAYGQTGSGKTY 84 (97)
Q Consensus 66 ~g~n~~v~ayG~t~sGKt~ 84 (97)
...+..|+-+|.+|+||+.
T Consensus 19 a~~~~pVlI~GE~GtGK~~ 37 (168)
T PF00158_consen 19 ASSDLPVLITGETGTGKEL 37 (168)
T ss_dssp TTSTS-EEEECSTTSSHHH
T ss_pred hCCCCCEEEEcCCCCcHHH
Confidence 3566788899999999964
No 226
>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=66.88 E-value=5.7 Score=31.23 Aligned_cols=42 Identities=26% Similarity=0.366 Sum_probs=26.0
Q ss_pred eeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 37 FTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 37 F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
-.|+.+. .|+..... ++..+.......++-+|.+|+|||...
T Consensus 151 ~~~~~ii----Gqs~~~~~----l~~~ia~~~~~~vlL~Gp~GtGKTTLA 192 (615)
T TIGR02903 151 RAFSEIV----GQERAIKA----LLAKVASPFPQHIILYGPPGVGKTTAA 192 (615)
T ss_pred CcHHhce----eCcHHHHH----HHHHHhcCCCCeEEEECCCCCCHHHHH
Confidence 3455554 34444443 234444566666778999999998754
No 227
>KOG0953|consensus
Probab=66.61 E-value=3 Score=32.85 Aligned_cols=16 Identities=50% Similarity=0.729 Sum_probs=13.8
Q ss_pred EEEeeccCCCccceee
Q psy15017 71 TILAYGQTGSGKTYTM 86 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T~ 86 (97)
-|+.-|.|+|||||.-
T Consensus 193 Ii~H~GPTNSGKTy~A 208 (700)
T KOG0953|consen 193 IIMHVGPTNSGKTYRA 208 (700)
T ss_pred EEEEeCCCCCchhHHH
Confidence 3788899999999975
No 228
>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=66.57 E-value=6.6 Score=26.72 Aligned_cols=26 Identities=27% Similarity=0.429 Sum_probs=19.4
Q ss_pred HHHHHHhC-CC--CEEEEeeccCCCccce
Q psy15017 59 SLVAGSLE-GY--NATILAYGQTGSGKTY 84 (97)
Q Consensus 59 p~v~~~~~-g~--n~~v~ayG~t~sGKt~ 84 (97)
+-++.++. |. .++++.+|..|+|||-
T Consensus 8 ~~LD~~l~GG~~~gs~~lI~G~pGsGKT~ 36 (237)
T TIGR03877 8 PGMDEILHGGIPERNVVLLSGGPGTGKSI 36 (237)
T ss_pred HhHHHHhcCCCcCCeEEEEEcCCCCCHHH
Confidence 44666665 43 6778889999999975
No 229
>PRK05580 primosome assembly protein PriA; Validated
Probab=66.47 E-value=4.5 Score=32.13 Aligned_cols=16 Identities=50% Similarity=0.561 Sum_probs=13.0
Q ss_pred EEEeeccCCCccceee
Q psy15017 71 TILAYGQTGSGKTYTM 86 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T~ 86 (97)
.++.+|.||||||...
T Consensus 164 ~~Ll~~~TGSGKT~v~ 179 (679)
T PRK05580 164 PFLLDGVTGSGKTEVY 179 (679)
T ss_pred cEEEECCCCChHHHHH
Confidence 4678899999999654
No 230
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=66.32 E-value=5.4 Score=34.16 Aligned_cols=21 Identities=33% Similarity=0.569 Sum_probs=14.6
Q ss_pred HhCCCCEEEEeeccCCCcccee
Q psy15017 64 SLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 64 ~~~g~n~~v~ayG~t~sGKt~T 85 (97)
++.+. ..++..|.||||||.-
T Consensus 85 ai~~~-~VviI~GeTGSGKTTq 105 (1294)
T PRK11131 85 AIRDH-QVVIVAGETGSGKTTQ 105 (1294)
T ss_pred HHHhC-CeEEEECCCCCCHHHH
Confidence 33443 3566779999999864
No 231
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=66.25 E-value=5.6 Score=30.23 Aligned_cols=28 Identities=25% Similarity=0.315 Sum_probs=21.1
Q ss_pred HHHHHHHHhCC---CCEEEEeeccCCCccce
Q psy15017 57 AASLVAGSLEG---YNATILAYGQTGSGKTY 84 (97)
Q Consensus 57 ~~p~v~~~~~g---~n~~v~ayG~t~sGKt~ 84 (97)
.-+-++.++.| ....++.+|.+|+|||-
T Consensus 16 GI~~LD~~l~GG~p~Gs~~li~G~pGsGKT~ 46 (509)
T PRK09302 16 GIEGFDDITHGGLPKGRPTLVSGTAGTGKTL 46 (509)
T ss_pred CchhHHHhhcCCCCCCcEEEEEeCCCCCHHH
Confidence 33556777764 46778889999999974
No 232
>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=66.09 E-value=5.6 Score=27.59 Aligned_cols=16 Identities=25% Similarity=0.366 Sum_probs=13.7
Q ss_pred CEEEEeeccCCCccce
Q psy15017 69 NATILAYGQTGSGKTY 84 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~ 84 (97)
..+++.+|.+|+|||.
T Consensus 36 gs~~lI~G~pGtGKT~ 51 (259)
T TIGR03878 36 YSVINITGVSDTGKSL 51 (259)
T ss_pred CcEEEEEcCCCCCHHH
Confidence 5677889999999975
No 233
>PRK13721 conjugal transfer ATP-binding protein TraC; Provisional
Probab=65.90 E-value=2.2 Score=34.56 Aligned_cols=18 Identities=33% Similarity=0.525 Sum_probs=14.7
Q ss_pred CEEEEeeccCCCccceee
Q psy15017 69 NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~T~ 86 (97)
|...+..|.+|||||.+|
T Consensus 449 N~N~~I~G~sGsGKS~l~ 466 (844)
T PRK13721 449 NYNMAVCGTSGAGKTGLI 466 (844)
T ss_pred cccEEEEcCCCCCHHHHH
Confidence 345677899999999887
No 234
>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=65.67 E-value=3.5 Score=27.61 Aligned_cols=25 Identities=36% Similarity=0.466 Sum_probs=18.4
Q ss_pred HHHHHhC-CC--CEEEEeeccCCCccce
Q psy15017 60 LVAGSLE-GY--NATILAYGQTGSGKTY 84 (97)
Q Consensus 60 ~v~~~~~-g~--n~~v~ayG~t~sGKt~ 84 (97)
-++.++. |. ++.++..|.+|+|||-
T Consensus 7 ~LD~~l~GGip~gs~~li~G~~GsGKT~ 34 (226)
T PF06745_consen 7 GLDELLGGGIPKGSVVLISGPPGSGKTT 34 (226)
T ss_dssp THHHHTTTSEETTSEEEEEESTTSSHHH
T ss_pred hHHHhhcCCCCCCcEEEEEeCCCCCcHH
Confidence 3566664 32 6778889999999974
No 235
>COG1122 CbiO ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=65.66 E-value=3.6 Score=28.46 Aligned_cols=16 Identities=38% Similarity=0.659 Sum_probs=12.9
Q ss_pred EEEeeccCCCccceee
Q psy15017 71 TILAYGQTGSGKTYTM 86 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T~ 86 (97)
.+..+|++|||||.-+
T Consensus 32 ~~~i~G~nGsGKSTL~ 47 (235)
T COG1122 32 RVLLIGPNGSGKSTLL 47 (235)
T ss_pred EEEEECCCCCCHHHHH
Confidence 5567899999998654
No 236
>KOG1803|consensus
Probab=65.65 E-value=6.6 Score=31.08 Aligned_cols=25 Identities=28% Similarity=0.452 Sum_probs=17.2
Q ss_pred HHHHhCCCCEEEEeeccCCCccceee
Q psy15017 61 VAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 61 v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
+..++... -...--|..|+|||+|+
T Consensus 194 v~~~~~~k-~l~~I~GPPGTGKT~Tl 218 (649)
T KOG1803|consen 194 VSFAINNK-DLLIIHGPPGTGKTRTL 218 (649)
T ss_pred HHHHhccC-CceEeeCCCCCCceeeH
Confidence 33444444 34456799999999997
No 237
>KOG0335|consensus
Probab=65.58 E-value=3.2 Score=31.79 Aligned_cols=23 Identities=39% Similarity=0.492 Sum_probs=16.7
Q ss_pred HHHHhCCCCEEEEeeccCCCcccee
Q psy15017 61 VAGSLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 61 v~~~~~g~n~~v~ayG~t~sGKt~T 85 (97)
|..+.+|.+ ++|.++||||||+-
T Consensus 105 ip~i~~Grd--l~acAqTGsGKT~a 127 (482)
T KOG0335|consen 105 IPIISGGRD--LMACAQTGSGKTAA 127 (482)
T ss_pred cceeecCCc--eEEEccCCCcchHH
Confidence 334556665 47899999999864
No 238
>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=65.56 E-value=7 Score=27.62 Aligned_cols=28 Identities=32% Similarity=0.358 Sum_probs=20.4
Q ss_pred HHHHHHhCCC---CEEEEeeccCCCccceee
Q psy15017 59 SLVAGSLEGY---NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 59 p~v~~~~~g~---n~~v~ayG~t~sGKt~T~ 86 (97)
+-++.++.|- ...+..||.+|+|||.-+
T Consensus 82 ~~lD~~l~GGi~~g~i~ei~G~~g~GKT~l~ 112 (310)
T TIGR02236 82 KELDELLGGGIETQAITEVFGEFGSGKTQIC 112 (310)
T ss_pred HHHHHHhcCCCCCCeEEEEECCCCCCHHHHH
Confidence 4566777632 556778999999998653
No 239
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=65.35 E-value=3.8 Score=28.53 Aligned_cols=14 Identities=36% Similarity=0.665 Sum_probs=11.2
Q ss_pred EeeccCCCccceee
Q psy15017 73 LAYGQTGSGKTYTM 86 (97)
Q Consensus 73 ~ayG~t~sGKt~T~ 86 (97)
.-.|.+|||||.-+
T Consensus 32 ~iiGpSGSGKSTlL 45 (240)
T COG1126 32 VIIGPSGSGKSTLL 45 (240)
T ss_pred EEECCCCCCHHHHH
Confidence 44799999998654
No 240
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=65.26 E-value=3.1 Score=30.75 Aligned_cols=15 Identities=60% Similarity=0.837 Sum_probs=12.4
Q ss_pred EEEEeeccCCCccce
Q psy15017 70 ATILAYGQTGSGKTY 84 (97)
Q Consensus 70 ~~v~ayG~t~sGKt~ 84 (97)
+.|+-.|.||||||.
T Consensus 98 SNILLiGPTGsGKTl 112 (408)
T COG1219 98 SNILLIGPTGSGKTL 112 (408)
T ss_pred ccEEEECCCCCcHHH
Confidence 456778999999985
No 241
>TIGR02902 spore_lonB ATP-dependent protease LonB. Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.
Probab=65.25 E-value=7.9 Score=29.85 Aligned_cols=23 Identities=26% Similarity=0.398 Sum_probs=16.6
Q ss_pred HHhCCCCEEEEeeccCCCcccee
Q psy15017 63 GSLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 63 ~~~~g~n~~v~ayG~t~sGKt~T 85 (97)
.+.......++-||.+|+|||.-
T Consensus 80 al~~~~~~~vLi~Ge~GtGKt~l 102 (531)
T TIGR02902 80 ALCGPNPQHVIIYGPPGVGKTAA 102 (531)
T ss_pred HHhCCCCceEEEECCCCCCHHHH
Confidence 34455556677799999999754
No 242
>KOG0354|consensus
Probab=64.98 E-value=6.5 Score=31.75 Aligned_cols=24 Identities=50% Similarity=0.619 Sum_probs=18.6
Q ss_pred HHHHHHhCCCCEEEEeeccCCCcccee
Q psy15017 59 SLVAGSLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 59 p~v~~~~~g~n~~v~ayG~t~sGKt~T 85 (97)
.++..+| |.|+.| --.||+|||+-
T Consensus 69 eivq~AL-gkNtii--~lPTG~GKTfI 92 (746)
T KOG0354|consen 69 ELVQPAL-GKNTII--ALPTGSGKTFI 92 (746)
T ss_pred HHhHHhh-cCCeEE--EeecCCCccch
Confidence 4677788 999765 36999999973
No 243
>COG0630 VirB11 Type IV secretory pathway, VirB11 components, and related ATPases involved in archaeal flagella biosynthesis [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=64.97 E-value=2.3 Score=30.59 Aligned_cols=16 Identities=44% Similarity=0.619 Sum_probs=13.5
Q ss_pred EEEeeccCCCccceee
Q psy15017 71 TILAYGQTGSGKTYTM 86 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T~ 86 (97)
+++..|.|+||||..|
T Consensus 145 siii~G~t~sGKTt~l 160 (312)
T COG0630 145 SIIICGGTASGKTTLL 160 (312)
T ss_pred cEEEECCCCCCHHHHH
Confidence 4667899999999877
No 244
>PF01293 PEPCK_ATP: Phosphoenolpyruvate carboxykinase The Prosite pattern is specific to the ATP binding region; InterPro: IPR001272 Phosphoenolpyruvate carboxykinase (PEPCK) catalyses the first committed (rate-limiting) step in hepatic gluconeogenesis, namely the reversible decarboxylation of oxaloacetate to phosphoenolpyruvate (PEP) and carbon dioxide, using either ATP or GTP as a source of phosphate. The ATP-utilising (4.1.1.49 from EC) and GTP-utilising (4.1.1.32 from EC) enzymes form two divergent subfamilies, which have little sequence similarity but which retain conserved active site residues. ATP-utilising PEPCKs are monomers or oligomers of identical subunits found in certain bacteria, yeast, trypanosomatids, and plants, while GTP-utilising PEPCKs are mainly monomers found in animals and some bacteria []. Both require divalent cations for activity, such as magnesium or manganese. One cation interacts with the enzyme at metal binding site 1 to elicit activation, while the second cation interacts at metal binding site 2 to serve as a metal-nucleotide substrate. In bacteria, fungi and plants, PEPCK is involved in the glyoxylate bypass, an alternative to the tricarboxylic acid cycle. PEPCK helps to regulate blood glucose levels. The rate of gluconeogenesis can be controlled through transcriptional regulation of the PEPCK gene by cAMP (the mediator of glucagon and catecholamines), glucocorticoids and insulin. In general, PEPCK expression is induced by glucagon, catecholamines and glucocorticoids during periods of fasting and in response to stress, but is inhibited by (glucose-induced) insulin upon feeding []. With type II diabetes, this regulation system can fail, resulting in increased gluconeogenesis that in turn raises glucose levels []. PEPCK consists of an N-terminal and a catalytic C-terminal domain, with the active site and metal ions located in a cleft between them. Both domains have an alpha/beta topology that is partly similar to one another [, ]. Substrate binding causes PEPCK to undergo a conformational change, which accelerates catalysis by forcing bulk solvent molecules out of the active site []. PCK uses an alpha/beta/alpha motif for nucleotide binding, this motif differing from other kinase domains. GTP-utilising PEPCK has a PEP-binding domain and two kinase motifs to bind GTP and magnesium. This entry represents ATP-utilising phosphoenolpyruvate carboxykinase enzymes.; GO: 0004612 phosphoenolpyruvate carboxykinase (ATP) activity, 0005524 ATP binding, 0006094 gluconeogenesis; PDB: 2PY7_X 2OLR_A 1AYL_A 1K3D_A 1OEN_A 1AQ2_A 1OS1_A 2OLQ_A 1K3C_A 2PXZ_X ....
Probab=64.87 E-value=3.3 Score=31.61 Aligned_cols=14 Identities=50% Similarity=0.797 Sum_probs=11.7
Q ss_pred EEEeeccCCCccce
Q psy15017 71 TILAYGQTGSGKTY 84 (97)
Q Consensus 71 ~v~ayG~t~sGKt~ 84 (97)
+.+.||.+|||||.
T Consensus 212 ~alfFGLSGTGKTT 225 (466)
T PF01293_consen 212 TALFFGLSGTGKTT 225 (466)
T ss_dssp EEEEEESTTSSHHH
T ss_pred eEEEEecCCCCccc
Confidence 46779999999983
No 245
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=64.75 E-value=5.6 Score=31.45 Aligned_cols=19 Identities=37% Similarity=0.653 Sum_probs=14.6
Q ss_pred CCCEEEEeeccCCCcccee
Q psy15017 67 GYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 67 g~n~~v~ayG~t~sGKt~T 85 (97)
..+..|+-.|.+|+||++.
T Consensus 397 ~~~~pVLI~GE~GTGK~~l 415 (686)
T PRK15429 397 QSDSTVLILGETGTGKELI 415 (686)
T ss_pred CCCCCEEEECCCCcCHHHH
Confidence 4455677899999999863
No 246
>cd03274 ABC_SMC4_euk Eukaryotic SMC4 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 (fo
Probab=64.67 E-value=1.9 Score=29.04 Aligned_cols=13 Identities=38% Similarity=0.672 Sum_probs=11.2
Q ss_pred eeccCCCccceee
Q psy15017 74 AYGQTGSGKTYTM 86 (97)
Q Consensus 74 ayG~t~sGKt~T~ 86 (97)
-.|.+|+|||.+|
T Consensus 30 ivGpNGaGKSTll 42 (212)
T cd03274 30 IVGPNGSGKSNVI 42 (212)
T ss_pred EECCCCCCHHHHH
Confidence 4599999999876
No 247
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=64.45 E-value=5.2 Score=30.88 Aligned_cols=27 Identities=30% Similarity=0.473 Sum_probs=18.0
Q ss_pred HHHHHhCCC--CEEEEeeccCCCccceee
Q psy15017 60 LVAGSLEGY--NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 60 ~v~~~~~g~--n~~v~ayG~t~sGKt~T~ 86 (97)
.++..+.+. .-.++-+|.+|+|||-|+
T Consensus 34 wl~~~~~~~~~~~iLlLtGP~G~GKtttv 62 (519)
T PF03215_consen 34 WLEEMFSGSSPKRILLLTGPSGCGKTTTV 62 (519)
T ss_pred HHHHHhccCCCcceEEEECCCCCCHHHHH
Confidence 334444443 235667899999999886
No 248
>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=64.22 E-value=7 Score=26.11 Aligned_cols=26 Identities=31% Similarity=0.479 Sum_probs=18.1
Q ss_pred HHHHHhC-CC--CEEEEeeccCCCcccee
Q psy15017 60 LVAGSLE-GY--NATILAYGQTGSGKTYT 85 (97)
Q Consensus 60 ~v~~~~~-g~--n~~v~ayG~t~sGKt~T 85 (97)
-++.++. |. ...+.-+|.+|+|||.-
T Consensus 4 ~LD~~l~gGi~~g~~~li~G~~G~GKt~~ 32 (224)
T TIGR03880 4 GLDEMLGGGFPEGHVIVVIGEYGTGKTTF 32 (224)
T ss_pred hhHHHhcCCCCCCeEEEEECCCCCCHHHH
Confidence 3566664 43 55667789999999753
No 249
>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=64.19 E-value=6.7 Score=29.79 Aligned_cols=26 Identities=27% Similarity=0.379 Sum_probs=20.2
Q ss_pred HHHHHHhCC---CCEEEEeeccCCCccce
Q psy15017 59 SLVAGSLEG---YNATILAYGQTGSGKTY 84 (97)
Q Consensus 59 p~v~~~~~g---~n~~v~ayG~t~sGKt~ 84 (97)
+-++.++.| .+.+++..|.+|+|||-
T Consensus 8 ~gLD~il~GGlp~g~~~Li~G~pGsGKT~ 36 (484)
T TIGR02655 8 EGFDDISHGGLPIGRSTLVSGTSGTGKTL 36 (484)
T ss_pred hhHHHhcCCCCCCCeEEEEEcCCCCCHHH
Confidence 456777764 37788899999999974
No 250
>COG1162 Predicted GTPases [General function prediction only]
Probab=64.09 E-value=5.9 Score=28.58 Aligned_cols=25 Identities=40% Similarity=0.555 Sum_probs=17.5
Q ss_pred HHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 60 LVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 60 ~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
.+...+.|. .++|+ |++|-||+.-+
T Consensus 157 ~l~~~l~~~-~svl~-GqSGVGKSSLi 181 (301)
T COG1162 157 ELAELLAGK-ITVLL-GQSGVGKSTLI 181 (301)
T ss_pred HHHHHhcCC-eEEEE-CCCCCcHHHHH
Confidence 345667777 45554 99999998544
No 251
>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]
Probab=63.92 E-value=3.2 Score=30.35 Aligned_cols=21 Identities=29% Similarity=0.461 Sum_probs=14.8
Q ss_pred eeccCCCccceee--cCCCCCCC
Q psy15017 74 AYGQTGSGKTYTM--GTGTFSPI 94 (97)
Q Consensus 74 ayG~t~sGKt~T~--~G~~~~~~ 94 (97)
-.|.+|+|||.+| +-+-+.|.
T Consensus 34 llGPSGcGKSTlLr~IAGLe~~~ 56 (338)
T COG3839 34 LLGPSGCGKSTLLRMIAGLEEPT 56 (338)
T ss_pred EECCCCCCHHHHHHHHhCCCCCC
Confidence 3599999999987 44444443
No 252
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=63.84 E-value=6.3 Score=27.10 Aligned_cols=25 Identities=32% Similarity=0.462 Sum_probs=18.5
Q ss_pred HHHHHhCC---CCEEEEeeccCCCccce
Q psy15017 60 LVAGSLEG---YNATILAYGQTGSGKTY 84 (97)
Q Consensus 60 ~v~~~~~g---~n~~v~ayG~t~sGKt~ 84 (97)
-++.++.| .+..++.+|..|||||-
T Consensus 11 glD~~l~GG~p~g~~~lI~G~pGsGKT~ 38 (260)
T COG0467 11 GLDEILGGGLPRGSVVLITGPPGTGKTI 38 (260)
T ss_pred chHHHhcCCCcCCcEEEEEcCCCCcHHH
Confidence 35566653 36678889999999974
No 253
>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional
Probab=63.81 E-value=5.4 Score=30.58 Aligned_cols=46 Identities=20% Similarity=0.278 Sum_probs=26.7
Q ss_pred eeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 35 KSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 35 ~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
..+.|+.+...+..-..+.+. +..+ ...+.-|+-+|.+|+||++..
T Consensus 199 ~~~~f~~~ig~s~~~~~~~~~-----~~~~-A~~~~pvlI~GE~GtGK~~lA 244 (520)
T PRK10820 199 DDSAFSQIVAVSPKMRQVVEQ-----ARKL-AMLDAPLLITGDTGTGKDLLA 244 (520)
T ss_pred ccccccceeECCHHHHHHHHH-----HHHH-hCCCCCEEEECCCCccHHHHH
Confidence 456777776655433333332 2222 223555778999999997643
No 254
>PRK00300 gmk guanylate kinase; Provisional
Probab=63.67 E-value=4.9 Score=26.32 Aligned_cols=16 Identities=31% Similarity=0.499 Sum_probs=12.3
Q ss_pred EEEEeeccCCCcccee
Q psy15017 70 ATILAYGQTGSGKTYT 85 (97)
Q Consensus 70 ~~v~ayG~t~sGKt~T 85 (97)
..+.-.|.+|||||..
T Consensus 6 ~~i~i~G~sGsGKstl 21 (205)
T PRK00300 6 LLIVLSGPSGAGKSTL 21 (205)
T ss_pred CEEEEECCCCCCHHHH
Confidence 3455679999999864
No 255
>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR. At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.
Probab=63.50 E-value=5.9 Score=30.61 Aligned_cols=43 Identities=23% Similarity=0.402 Sum_probs=24.9
Q ss_pred eeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCcccee
Q psy15017 37 FTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 37 F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T 85 (97)
+.|+.+.+.+..-+.+.+ .+.. +...+..|+-.|.+|+||+.-
T Consensus 209 ~~f~~iiG~S~~m~~~~~-----~i~~-~A~~~~pVLI~GE~GTGKe~l 251 (526)
T TIGR02329 209 YRLDDLLGASAPMEQVRA-----LVRL-YARSDATVLILGESGTGKELV 251 (526)
T ss_pred cchhheeeCCHHHHHHHH-----HHHH-HhCCCCcEEEECCCCcCHHHH
Confidence 566666654432222222 2222 234566788899999999653
No 256
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=63.35 E-value=6.3 Score=30.58 Aligned_cols=19 Identities=37% Similarity=0.600 Sum_probs=15.0
Q ss_pred CCCCEEEEeeccCCCccce
Q psy15017 66 EGYNATILAYGQTGSGKTY 84 (97)
Q Consensus 66 ~g~n~~v~ayG~t~sGKt~ 84 (97)
...+..|+-.|.+|+||+.
T Consensus 239 A~s~~pVLI~GE~GTGKe~ 257 (538)
T PRK15424 239 ARSSAAVLIQGETGTGKEL 257 (538)
T ss_pred hCCCCcEEEECCCCCCHHH
Confidence 3456678889999999965
No 257
>PF02534 T4SS-DNA_transf: Type IV secretory system Conjugative DNA transfer; InterPro: IPR003688 This entry represents TraG proteins and their homologues. These proteins contain a P-loop and walker-B site for nucleotide binding. TraG is essential for DNA transfer in bacterial conjugation. These proteins are thought to mediate interactions between the DNA-processing (Dtr) and the mating pair formation (Mpf) systems [, ].; GO: 0009291 unidirectional conjugation, 0016020 membrane
Probab=63.20 E-value=6.9 Score=29.17 Aligned_cols=18 Identities=44% Similarity=0.643 Sum_probs=15.2
Q ss_pred EEEEeeccCCCccceeec
Q psy15017 70 ATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 70 ~~v~ayG~t~sGKt~T~~ 87 (97)
.-++..|.+|||||.++.
T Consensus 45 ~h~lvig~tgSGKt~~~v 62 (469)
T PF02534_consen 45 THVLVIGPTGSGKTTSFV 62 (469)
T ss_pred eEEEEEeCCCCCccceee
Confidence 567889999999998763
No 258
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=63.06 E-value=9.9 Score=28.83 Aligned_cols=18 Identities=39% Similarity=0.624 Sum_probs=14.3
Q ss_pred CEEEEeeccCCCccceee
Q psy15017 69 NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~T~ 86 (97)
...++..|.+|+|||.|+
T Consensus 223 ~~vi~lvGptGvGKTTta 240 (432)
T PRK12724 223 RKVVFFVGPTGSGKTTSI 240 (432)
T ss_pred CeEEEEECCCCCCHHHHH
Confidence 345666799999999886
No 259
>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=62.96 E-value=4.2 Score=22.26 Aligned_cols=13 Identities=38% Similarity=0.549 Sum_probs=9.9
Q ss_pred EeeccCCCcccee
Q psy15017 73 LAYGQTGSGKTYT 85 (97)
Q Consensus 73 ~ayG~t~sGKt~T 85 (97)
.-.|..|||||..
T Consensus 3 ~i~G~~gsGKst~ 15 (69)
T cd02019 3 AITGGSGSGKSTV 15 (69)
T ss_pred EEECCCCCCHHHH
Confidence 3459999999754
No 260
>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=62.59 E-value=4.5 Score=27.00 Aligned_cols=16 Identities=44% Similarity=0.625 Sum_probs=13.4
Q ss_pred EEEeeccCCCccceee
Q psy15017 71 TILAYGQTGSGKTYTM 86 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T~ 86 (97)
++.-+|.+|+|||..+
T Consensus 24 ~~~i~G~NGsGKTTLl 39 (204)
T cd03240 24 LTLIVGQNGAGKTTII 39 (204)
T ss_pred eEEEECCCCCCHHHHH
Confidence 5667899999999776
No 261
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=62.56 E-value=6.7 Score=28.80 Aligned_cols=44 Identities=18% Similarity=0.317 Sum_probs=26.8
Q ss_pred eeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 35 KSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 35 ~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
..|.|+.|- .|+++-......+++. +.+ .++-.|.+|+|||+.+
T Consensus 12 ~~~pf~~iv----Gq~~~k~al~~~~~~p---~~~-~vli~G~~GtGKs~~a 55 (350)
T CHL00081 12 PVFPFTAIV----GQEEMKLALILNVIDP---KIG-GVMIMGDRGTGKSTTI 55 (350)
T ss_pred CCCCHHHHh----ChHHHHHHHHHhccCC---CCC-eEEEEcCCCCCHHHHH
Confidence 355665554 5666555544433332 223 4667899999999875
No 262
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=62.54 E-value=3.1 Score=31.90 Aligned_cols=17 Identities=41% Similarity=0.505 Sum_probs=13.5
Q ss_pred EEEEeeccCCCccceee
Q psy15017 70 ATILAYGQTGSGKTYTM 86 (97)
Q Consensus 70 ~~v~ayG~t~sGKt~T~ 86 (97)
..+.-.|.+|+|||.|+
T Consensus 257 ~Vi~LvGpnGvGKTTTi 273 (484)
T PRK06995 257 GVFALMGPTGVGKTTTT 273 (484)
T ss_pred cEEEEECCCCccHHHHH
Confidence 34555699999999987
No 263
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=62.40 E-value=3.2 Score=25.69 Aligned_cols=19 Identities=26% Similarity=0.527 Sum_probs=14.0
Q ss_pred CCCEEEEeeccCCCcccee
Q psy15017 67 GYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 67 g~n~~v~ayG~t~sGKt~T 85 (97)
..+.-|+-+|..||||++.
T Consensus 19 ~~~~pvli~GE~GtGK~~~ 37 (138)
T PF14532_consen 19 KSSSPVLITGEPGTGKSLL 37 (138)
T ss_dssp CSSS-EEEECCTTSSHHHH
T ss_pred CCCCcEEEEcCCCCCHHHH
Confidence 4555677799999999764
No 264
>PRK10689 transcription-repair coupling factor; Provisional
Probab=62.37 E-value=7.9 Score=32.77 Aligned_cols=38 Identities=18% Similarity=0.171 Sum_probs=23.5
Q ss_pred cCCCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCcccee
Q psy15017 44 DMADVQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 44 ~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T 85 (97)
.+...|.+.+..+... +-++....++..|.+|+|||-.
T Consensus 600 ~~T~~Q~~aI~~il~d----~~~~~~~d~Ll~a~TGsGKT~v 637 (1147)
T PRK10689 600 ETTPDQAQAINAVLSD----MCQPLAMDRLVCGDVGFGKTEV 637 (1147)
T ss_pred CCCHHHHHHHHHHHHH----hhcCCCCCEEEEcCCCcCHHHH
Confidence 3444666666554333 2234444577889999999953
No 265
>COG1483 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=62.36 E-value=5.5 Score=32.23 Aligned_cols=20 Identities=40% Similarity=0.438 Sum_probs=16.6
Q ss_pred CCEEEEeeccCCCccceeec
Q psy15017 68 YNATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 68 ~n~~v~ayG~t~sGKt~T~~ 87 (97)
.+..++-|-.-|-||||||.
T Consensus 66 ~~nv~li~s~fGGGKTHtll 85 (774)
T COG1483 66 GENVILIYSLFGGGKTHTLL 85 (774)
T ss_pred CCCeEEehhhcCCCchhHHH
Confidence 34568889999999999984
No 266
>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=62.23 E-value=3.5 Score=29.05 Aligned_cols=16 Identities=31% Similarity=0.441 Sum_probs=13.0
Q ss_pred EEEeeccCCCccceee
Q psy15017 71 TILAYGQTGSGKTYTM 86 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T~ 86 (97)
-++-+|.+|+|||+..
T Consensus 60 ~vll~G~pGTGKT~lA 75 (284)
T TIGR02880 60 HMSFTGNPGTGKTTVA 75 (284)
T ss_pred eEEEEcCCCCCHHHHH
Confidence 4667899999999753
No 267
>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=62.10 E-value=11 Score=27.22 Aligned_cols=30 Identities=23% Similarity=0.326 Sum_probs=21.8
Q ss_pred HHHHHHHHhCC-C--CEEEEeeccCCCccceee
Q psy15017 57 AASLVAGSLEG-Y--NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 57 ~~p~v~~~~~g-~--n~~v~ayG~t~sGKt~T~ 86 (97)
..+.++.+|.| . .....-||..|+|||.-.
T Consensus 81 G~~~LD~lLgGGi~~G~iteI~G~~GsGKTql~ 113 (313)
T TIGR02238 81 GSQALDGILGGGIESMSITEVFGEFRCGKTQLS 113 (313)
T ss_pred CCHHHHHHhCCCCcCCeEEEEECCCCCCcCHHH
Confidence 34667888864 3 455668999999998644
No 268
>PF05872 DUF853: Bacterial protein of unknown function (DUF853); InterPro: IPR008571 Members of this family have a P-loop containing nucleotide triphosphate hydrolases fold. This family is restricted to bacterial proteins, none of which have currently been characterised.
Probab=62.06 E-value=3 Score=31.96 Aligned_cols=13 Identities=54% Similarity=0.777 Sum_probs=11.5
Q ss_pred eccCCCccceeec
Q psy15017 75 YGQTGSGKTYTMG 87 (97)
Q Consensus 75 yG~t~sGKt~T~~ 87 (97)
-|.||+|||-||.
T Consensus 25 aGATGTGKTvTLq 37 (502)
T PF05872_consen 25 AGATGTGKTVTLQ 37 (502)
T ss_pred eccCCCCceehHH
Confidence 5999999999983
No 269
>CHL00181 cbbX CbbX; Provisional
Probab=61.99 E-value=3.6 Score=29.12 Aligned_cols=15 Identities=33% Similarity=0.465 Sum_probs=12.3
Q ss_pred EEeeccCCCccceee
Q psy15017 72 ILAYGQTGSGKTYTM 86 (97)
Q Consensus 72 v~ayG~t~sGKt~T~ 86 (97)
++-+|.+|+|||+..
T Consensus 62 ill~G~pGtGKT~lA 76 (287)
T CHL00181 62 MSFTGSPGTGKTTVA 76 (287)
T ss_pred EEEECCCCCCHHHHH
Confidence 566899999998753
No 270
>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=61.99 E-value=3.7 Score=28.52 Aligned_cols=20 Identities=45% Similarity=0.768 Sum_probs=16.3
Q ss_pred CCCEEEEeeccCCCccceee
Q psy15017 67 GYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 67 g~n~~v~ayG~t~sGKt~T~ 86 (97)
.....|...|.+|+|||.++
T Consensus 29 ~~~~~IllvG~tGvGKSSli 48 (249)
T cd01853 29 DFSLTILVLGKTGVGKSSTI 48 (249)
T ss_pred cCCeEEEEECCCCCcHHHHH
Confidence 44567888999999999875
No 271
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=61.96 E-value=9.3 Score=27.23 Aligned_cols=28 Identities=32% Similarity=0.386 Sum_probs=20.3
Q ss_pred HHHHHHhCC-C--CEEEEeeccCCCccceee
Q psy15017 59 SLVAGSLEG-Y--NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 59 p~v~~~~~g-~--n~~v~ayG~t~sGKt~T~ 86 (97)
+-++.++.| . ...+.-+|.+|+|||...
T Consensus 89 ~~lD~~l~GGi~~g~vtei~G~~GsGKT~l~ 119 (317)
T PRK04301 89 KELDELLGGGIETQSITEFYGEFGSGKTQIC 119 (317)
T ss_pred HHHHHHhcCCccCCcEEEEECCCCCCHhHHH
Confidence 556677764 2 556778999999998644
No 272
>COG1118 CysA ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]
Probab=61.87 E-value=3 Score=30.45 Aligned_cols=21 Identities=29% Similarity=0.447 Sum_probs=14.7
Q ss_pred eeccCCCccceee--cCCCCCCC
Q psy15017 74 AYGQTGSGKTYTM--GTGTFSPI 94 (97)
Q Consensus 74 ayG~t~sGKt~T~--~G~~~~~~ 94 (97)
-+|.+|||||..+ +-+-+.|.
T Consensus 33 LlGpSGaGKsTlLRiIAGLe~p~ 55 (345)
T COG1118 33 LLGPSGAGKSTLLRIIAGLETPD 55 (345)
T ss_pred EECCCCCcHHHHHHHHhCcCCCC
Confidence 3699999999876 44444443
No 273
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=61.51 E-value=9.8 Score=31.00 Aligned_cols=28 Identities=21% Similarity=0.275 Sum_probs=18.6
Q ss_pred HHHHHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 57 AASLVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 57 ~~p~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
...+++.+.++.+ ++..|.||||||..+
T Consensus 10 ~~~i~~~l~~~~~--vvv~A~TGSGKTt~~ 37 (812)
T PRK11664 10 LPELLTALKTAPQ--VLLKAPTGAGKSTWL 37 (812)
T ss_pred HHHHHHHHHhCCC--EEEEcCCCCCHHHHH
Confidence 3445555555444 566899999998654
No 274
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=61.39 E-value=5.9 Score=30.33 Aligned_cols=24 Identities=38% Similarity=0.527 Sum_probs=18.9
Q ss_pred HHHHHHhCCCCEEEEeeccCCCccce
Q psy15017 59 SLVAGSLEGYNATILAYGQTGSGKTY 84 (97)
Q Consensus 59 p~v~~~~~g~n~~v~ayG~t~sGKt~ 84 (97)
..+..+++|.+ +++..+||||||.
T Consensus 58 ~~IP~~l~g~D--vi~~A~TGsGKT~ 81 (513)
T COG0513 58 AAIPLILAGRD--VLGQAQTGTGKTA 81 (513)
T ss_pred HHHHHHhCCCC--EEEECCCCChHHH
Confidence 46677889966 5678899999974
No 275
>KOG2655|consensus
Probab=61.33 E-value=7.3 Score=28.90 Aligned_cols=22 Identities=27% Similarity=0.620 Sum_probs=19.1
Q ss_pred HHhCCCCEEEEeeccCCCccce
Q psy15017 63 GSLEGYNATILAYGQTGSGKTY 84 (97)
Q Consensus 63 ~~~~g~n~~v~ayG~t~sGKt~ 84 (97)
.+..|+..++++-|.+|+|||.
T Consensus 15 ~~KkG~~ftlmvvG~sGlGKsT 36 (366)
T KOG2655|consen 15 SVKKGFDFTLMVVGESGLGKST 36 (366)
T ss_pred HHhcCCceEEEEecCCCccHHH
Confidence 3568999999999999999964
No 276
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=61.17 E-value=3.6 Score=34.58 Aligned_cols=21 Identities=24% Similarity=0.502 Sum_probs=15.8
Q ss_pred CCCEEEEeeccCCCccceeec
Q psy15017 67 GYNATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 67 g~n~~v~ayG~t~sGKt~T~~ 87 (97)
-.+++++.=...||||||||.
T Consensus 14 ~~~~~~lveASAGSGKT~vL~ 34 (1139)
T COG1074 14 PPGQSVLVEASAGTGKTFVLA 34 (1139)
T ss_pred CCCCcEEEEEcCCCCchhHHH
Confidence 344456667899999999983
No 277
>PRK13531 regulatory ATPase RavA; Provisional
Probab=61.14 E-value=9 Score=29.57 Aligned_cols=26 Identities=19% Similarity=0.344 Sum_probs=17.8
Q ss_pred HHHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 59 SLVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 59 p~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
-+...++.|.+ |+-+|.+|+|||+..
T Consensus 31 lll~aalag~h--VLL~GpPGTGKT~LA 56 (498)
T PRK13531 31 LCLLAALSGES--VFLLGPPGIAKSLIA 56 (498)
T ss_pred HHHHHHccCCC--EEEECCCChhHHHHH
Confidence 34445556665 455899999998753
No 278
>PRK11784 tRNA 2-selenouridine synthase; Provisional
Probab=61.14 E-value=5.8 Score=29.00 Aligned_cols=33 Identities=24% Similarity=0.354 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 53 YELCAASLVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 53 ~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
|...+.+..+.+....+. +.-.|.||||||..|
T Consensus 126 wr~~~~~~~~~~~~~~~~-ivl~G~TGsGKT~iL 158 (345)
T PRK11784 126 YRRFVIDTLEEAPAQFPL-VVLGGNTGSGKTELL 158 (345)
T ss_pred HHHhhHHHHhhhcccCce-EecCCCCcccHHHHH
Confidence 444444444443344443 335689999999877
No 279
>KOG2228|consensus
Probab=61.02 E-value=18 Score=27.00 Aligned_cols=35 Identities=34% Similarity=0.486 Sum_probs=25.7
Q ss_pred cHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 48 VQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 48 ~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
.|..++.- +-..++.|...++.-.|..|||||+-+
T Consensus 32 ~~~~l~~~----lkqt~~~gEsnsviiigprgsgkT~li 66 (408)
T KOG2228|consen 32 EQKHLSEL----LKQTILHGESNSVIIIGPRGSGKTILI 66 (408)
T ss_pred HHHHHHHH----HHHHHHhcCCCceEEEccCCCCceEee
Confidence 45555533 234577888888888999999999865
No 280
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=61.00 E-value=3.7 Score=32.64 Aligned_cols=19 Identities=32% Similarity=0.499 Sum_probs=15.4
Q ss_pred CEEEEeeccCCCccceeec
Q psy15017 69 NATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~T~~ 87 (97)
..-++..|..|||||.||.
T Consensus 17 ~g~~lV~AgaGSGKT~~l~ 35 (726)
T TIGR01073 17 EGPLLIMAGAGSGKTRVLT 35 (726)
T ss_pred CCCEEEEeCCCCCHHHHHH
Confidence 3457788999999999873
No 281
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=60.97 E-value=3.7 Score=32.57 Aligned_cols=18 Identities=33% Similarity=0.538 Sum_probs=14.6
Q ss_pred EEEEeeccCCCccceeec
Q psy15017 70 ATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 70 ~~v~ayG~t~sGKt~T~~ 87 (97)
+.++..+..|||||.||.
T Consensus 18 g~~lV~AgaGSGKT~~L~ 35 (715)
T TIGR01075 18 GNLLVLAGAGSGKTRVLT 35 (715)
T ss_pred CCEEEEecCCCCHHHHHH
Confidence 346678899999999983
No 282
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=60.79 E-value=3.5 Score=30.91 Aligned_cols=16 Identities=56% Similarity=0.677 Sum_probs=13.4
Q ss_pred EEEeeccCCCccceee
Q psy15017 71 TILAYGQTGSGKTYTM 86 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T~ 86 (97)
.+.-.|.+|+|||.|+
T Consensus 208 ii~lvGptGvGKTTt~ 223 (407)
T PRK12726 208 IISLIGQTGVGKTTTL 223 (407)
T ss_pred EEEEECCCCCCHHHHH
Confidence 4566799999999987
No 283
>KOG0924|consensus
Probab=60.70 E-value=5.7 Score=32.29 Aligned_cols=20 Identities=40% Similarity=0.596 Sum_probs=16.4
Q ss_pred CCCEEEEeeccCCCccceee
Q psy15017 67 GYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 67 g~n~~v~ayG~t~sGKt~T~ 86 (97)
+.|.+|+..|.||||||.-+
T Consensus 369 r~n~vvvivgETGSGKTTQl 388 (1042)
T KOG0924|consen 369 RENQVVVIVGETGSGKTTQL 388 (1042)
T ss_pred hhCcEEEEEecCCCCchhhh
Confidence 55778888999999998654
No 284
>KOG0348|consensus
Probab=60.60 E-value=6.5 Score=30.96 Aligned_cols=24 Identities=46% Similarity=0.567 Sum_probs=18.6
Q ss_pred HHHHHHhCCCCEEEEeeccCCCccce
Q psy15017 59 SLVAGSLEGYNATILAYGQTGSGKTY 84 (97)
Q Consensus 59 p~v~~~~~g~n~~v~ayG~t~sGKt~ 84 (97)
..|..+++|.+..| -.|||||||-
T Consensus 166 q~IP~lL~grD~lV--~aQTGSGKTL 189 (708)
T KOG0348|consen 166 QAIPVLLEGRDALV--RAQTGSGKTL 189 (708)
T ss_pred cchhhhhcCcceEE--EcCCCCcccH
Confidence 46677888888654 5699999973
No 285
>KOG0330|consensus
Probab=60.10 E-value=6.8 Score=29.63 Aligned_cols=25 Identities=32% Similarity=0.438 Sum_probs=19.0
Q ss_pred HHHHHHhCCCCEEEEeeccCCCcccee
Q psy15017 59 SLVAGSLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 59 p~v~~~~~g~n~~v~ayG~t~sGKt~T 85 (97)
..|..++.|..+. ...+||||||-+
T Consensus 90 ~aiP~~L~g~dvI--glAeTGSGKT~a 114 (476)
T KOG0330|consen 90 EAIPVALGGRDVI--GLAETGSGKTGA 114 (476)
T ss_pred hhcchhhCCCcEE--EEeccCCCchhh
Confidence 4566788888854 567999999854
No 286
>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=60.02 E-value=5.1 Score=26.58 Aligned_cols=16 Identities=44% Similarity=0.414 Sum_probs=12.0
Q ss_pred EEEeeccCCCccceee
Q psy15017 71 TILAYGQTGSGKTYTM 86 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T~ 86 (97)
.|.-.|.+|||||..+
T Consensus 8 vi~I~G~sGsGKSTl~ 23 (207)
T TIGR00235 8 IIGIGGGSGSGKTTVA 23 (207)
T ss_pred EEEEECCCCCCHHHHH
Confidence 4455699999998643
No 287
>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA. This model represents HrpA, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterized, is about 800 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=59.95 E-value=8.9 Score=32.89 Aligned_cols=18 Identities=44% Similarity=0.728 Sum_probs=13.4
Q ss_pred CEEEEeeccCCCccceee
Q psy15017 69 NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~T~ 86 (97)
|..++..|.||||||.-+
T Consensus 82 ~~vvii~g~TGSGKTTql 99 (1283)
T TIGR01967 82 NQVVIIAGETGSGKTTQL 99 (1283)
T ss_pred CceEEEeCCCCCCcHHHH
Confidence 335667799999998643
No 288
>PRK10865 protein disaggregation chaperone; Provisional
Probab=59.76 E-value=8.6 Score=31.45 Aligned_cols=47 Identities=21% Similarity=0.152 Sum_probs=0.0
Q ss_pred ccEEecCCCcHHHHHHHHHHHHHHHHhCCCC-EEEEeeccCCCcccee
Q psy15017 39 FDYVFDMADVQTTIYELCAASLVAGSLEGYN-ATILAYGQTGSGKTYT 85 (97)
Q Consensus 39 fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n-~~v~ayG~t~sGKt~T 85 (97)
++.+++.+..-..+...+........-.+.. ..++-.|.+|+|||++
T Consensus 567 ~~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~l 614 (857)
T PRK10865 567 HHRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTEL 614 (857)
T ss_pred CCeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHH
No 289
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=59.54 E-value=4 Score=32.49 Aligned_cols=18 Identities=33% Similarity=0.492 Sum_probs=14.3
Q ss_pred EEEEeeccCCCccceeec
Q psy15017 70 ATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 70 ~~v~ayG~t~sGKt~T~~ 87 (97)
+.++..+..|||||.||.
T Consensus 23 g~~lV~AgaGSGKT~vl~ 40 (721)
T PRK11773 23 GNMLVLAGAGSGKTRVLV 40 (721)
T ss_pred CCEEEEecCCCCHHHHHH
Confidence 346677889999999973
No 290
>PRK09401 reverse gyrase; Reviewed
Probab=59.54 E-value=9.1 Score=32.51 Aligned_cols=24 Identities=33% Similarity=0.281 Sum_probs=18.1
Q ss_pred HHHHHhCCCCEEEEeeccCCCcccee
Q psy15017 60 LVAGSLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 60 ~v~~~~~g~n~~v~ayG~t~sGKt~T 85 (97)
.+..++.|.+..+ ..+||||||..
T Consensus 88 ~i~~il~g~dv~i--~ApTGsGKT~f 111 (1176)
T PRK09401 88 WAKRLLLGESFAI--IAPTGVGKTTF 111 (1176)
T ss_pred HHHHHHCCCcEEE--EcCCCCCHHHH
Confidence 4556789987654 56999999953
No 291
>KOG0328|consensus
Probab=59.32 E-value=9.3 Score=27.91 Aligned_cols=25 Identities=36% Similarity=0.563 Sum_probs=19.9
Q ss_pred HHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 60 LVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 60 ~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
.|..+++|.+. .|-.++|+|||-|.
T Consensus 57 Ai~~IlkGrdV--iaQaqSGTGKTa~~ 81 (400)
T KOG0328|consen 57 AIPQILKGRDV--IAQAQSGTGKTATF 81 (400)
T ss_pred hhhhhhcccce--EEEecCCCCceEEE
Confidence 45678899984 57789999998775
No 292
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=59.29 E-value=9.2 Score=27.05 Aligned_cols=37 Identities=24% Similarity=0.109 Sum_probs=22.8
Q ss_pred CCCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCccceeec
Q psy15017 45 MADVQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 45 ~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T~~ 87 (97)
+...|.++-+. +.+.+.+|.+ ++.=..||+|||.+.+
T Consensus 9 ~r~~Q~~~m~~----v~~~~~~~~~--~~~eapTGtGKTl~~L 45 (289)
T smart00489 9 PYPIQYEFMEE----LKRVLDRGKI--GILESPTGTGKTLSLL 45 (289)
T ss_pred CCHHHHHHHHH----HHHHHHcCCc--EEEECCCCcchhHHHH
Confidence 34456555444 3344456654 3456799999997764
No 293
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=59.29 E-value=9.2 Score=27.05 Aligned_cols=37 Identities=24% Similarity=0.109 Sum_probs=22.8
Q ss_pred CCCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCccceeec
Q psy15017 45 MADVQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 45 ~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T~~ 87 (97)
+...|.++-+. +.+.+.+|.+ ++.=..||+|||.+.+
T Consensus 9 ~r~~Q~~~m~~----v~~~~~~~~~--~~~eapTGtGKTl~~L 45 (289)
T smart00488 9 PYPIQYEFMEE----LKRVLDRGKI--GILESPTGTGKTLSLL 45 (289)
T ss_pred CCHHHHHHHHH----HHHHHHcCCc--EEEECCCCcchhHHHH
Confidence 34456555444 3344456654 3456799999997764
No 294
>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=59.10 E-value=4.4 Score=30.75 Aligned_cols=16 Identities=38% Similarity=0.596 Sum_probs=13.6
Q ss_pred EEEeeccCCCccceee
Q psy15017 71 TILAYGQTGSGKTYTM 86 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T~ 86 (97)
.++-||..|+|||+..
T Consensus 90 giLL~GppGtGKT~la 105 (495)
T TIGR01241 90 GVLLVGPPGTGKTLLA 105 (495)
T ss_pred cEEEECCCCCCHHHHH
Confidence 4777999999999875
No 295
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=58.98 E-value=4.4 Score=32.81 Aligned_cols=17 Identities=41% Similarity=0.522 Sum_probs=14.0
Q ss_pred EEEEeeccCCCccceee
Q psy15017 70 ATILAYGQTGSGKTYTM 86 (97)
Q Consensus 70 ~~v~ayG~t~sGKt~T~ 86 (97)
.++.-.|.+|+|||.|+
T Consensus 186 ~Vi~lVGpnGvGKTTTi 202 (767)
T PRK14723 186 GVLALVGPTGVGKTTTT 202 (767)
T ss_pred eEEEEECCCCCcHHHHH
Confidence 45566799999999987
No 296
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=58.90 E-value=4.5 Score=30.46 Aligned_cols=17 Identities=41% Similarity=0.462 Sum_probs=14.0
Q ss_pred EEEEeeccCCCccceee
Q psy15017 70 ATILAYGQTGSGKTYTM 86 (97)
Q Consensus 70 ~~v~ayG~t~sGKt~T~ 86 (97)
..+.-.|.+|+|||.|+
T Consensus 192 ~vi~lvGpnG~GKTTtl 208 (420)
T PRK14721 192 GVYALIGPTGVGKTTTT 208 (420)
T ss_pred cEEEEECCCCCCHHHHH
Confidence 34556699999999998
No 297
>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=58.88 E-value=5.1 Score=28.18 Aligned_cols=17 Identities=47% Similarity=0.606 Sum_probs=13.1
Q ss_pred EEEEeeccCCCccceee
Q psy15017 70 ATILAYGQTGSGKTYTM 86 (97)
Q Consensus 70 ~~v~ayG~t~sGKt~T~ 86 (97)
.++.-.|.+|+|||.|.
T Consensus 73 ~vi~l~G~~G~GKTTt~ 89 (272)
T TIGR00064 73 NVILFVGVNGVGKTTTI 89 (272)
T ss_pred eEEEEECCCCCcHHHHH
Confidence 44555599999999875
No 298
>KOG0922|consensus
Probab=58.85 E-value=6.5 Score=31.32 Aligned_cols=18 Identities=39% Similarity=0.743 Sum_probs=13.4
Q ss_pred CEEEEeeccCCCccceee
Q psy15017 69 NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~T~ 86 (97)
|..+..-|.||||||.-+
T Consensus 66 nqvlIviGeTGsGKSTQi 83 (674)
T KOG0922|consen 66 NQVLIVIGETGSGKSTQI 83 (674)
T ss_pred CCEEEEEcCCCCCccccH
Confidence 445566799999998643
No 299
>KOG1514|consensus
Probab=58.51 E-value=17 Score=29.49 Aligned_cols=21 Identities=33% Similarity=0.485 Sum_probs=18.2
Q ss_pred CCCEEEEeeccCCCccceeec
Q psy15017 67 GYNATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 67 g~n~~v~ayG~t~sGKt~T~~ 87 (97)
|-.+|+..-|..|+|||+|+.
T Consensus 420 ~~g~~mYIsGvPGtGKT~tV~ 440 (767)
T KOG1514|consen 420 GLGSCMYISGVPGTGKTATVL 440 (767)
T ss_pred CCceeEEEecCCCCCceehHH
Confidence 666789888999999999974
No 300
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=58.21 E-value=7.3 Score=32.49 Aligned_cols=26 Identities=23% Similarity=0.416 Sum_probs=19.7
Q ss_pred HHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 60 LVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 60 ~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
.+..++.+.+.+ +.-|..|+|||++|
T Consensus 354 Av~~il~s~~v~-vv~G~AGTGKTT~l 379 (988)
T PRK13889 354 ALAHVTDGRDLG-VVVGYAGTGKSAML 379 (988)
T ss_pred HHHHHhcCCCeE-EEEeCCCCCHHHHH
Confidence 456677766644 46799999999986
No 301
>PRK14527 adenylate kinase; Provisional
Probab=58.15 E-value=6.1 Score=25.82 Aligned_cols=15 Identities=27% Similarity=0.538 Sum_probs=12.7
Q ss_pred EEEEeeccCCCccce
Q psy15017 70 ATILAYGQTGSGKTY 84 (97)
Q Consensus 70 ~~v~ayG~t~sGKt~ 84 (97)
..++.+|..|||||.
T Consensus 7 ~~i~i~G~pGsGKsT 21 (191)
T PRK14527 7 KVVIFLGPPGAGKGT 21 (191)
T ss_pred cEEEEECCCCCCHHH
Confidence 467889999999976
No 302
>COG3598 RepA RecA-family ATPase [DNA replication, recombination, and repair]
Probab=57.96 E-value=7.2 Score=28.90 Aligned_cols=47 Identities=26% Similarity=0.320 Sum_probs=30.0
Q ss_pred eccEEecCCCcHHHHHHHHHHHHHHHHh-CCCCEEEEeeccCCCccceee
Q psy15017 38 TFDYVFDMADVQTTIYELCAASLVAGSL-EGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 38 ~fd~vf~~~~~q~~v~~~~~~p~v~~~~-~g~n~~v~ayG~t~sGKt~T~ 86 (97)
.|-+|-.++.++.+-=.+....+|+..+ +|+. +|.||.+|.|||.-+
T Consensus 59 ~f~~v~a~~~~~~eWdrs~~P~lId~~fr~g~~--~~~~gdsg~GKttll 106 (402)
T COG3598 59 SFIQVQAEAMRLSEWDRSNSPQLIDEFFRKGYV--SILYGDSGVGKTTLL 106 (402)
T ss_pred heeEehhhhcChhhcCcccChhhhhHHhhcCee--EEEecCCcccHhHHH
Confidence 3446666665555433344455777765 5764 567999999999753
No 303
>PRK05480 uridine/cytidine kinase; Provisional
Probab=57.68 E-value=6.7 Score=25.93 Aligned_cols=16 Identities=44% Similarity=0.451 Sum_probs=11.8
Q ss_pred EEEeeccCCCccceee
Q psy15017 71 TILAYGQTGSGKTYTM 86 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T~ 86 (97)
.|.--|.+|||||...
T Consensus 8 iI~I~G~sGsGKTTl~ 23 (209)
T PRK05480 8 IIGIAGGSGSGKTTVA 23 (209)
T ss_pred EEEEECCCCCCHHHHH
Confidence 4455699999998643
No 304
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=57.50 E-value=5.3 Score=29.73 Aligned_cols=50 Identities=26% Similarity=0.331 Sum_probs=27.9
Q ss_pred eeccEEecCCCcHHHHHHHHHHHHHHH-HhC--C--CCEEEEeeccCCCccceee
Q psy15017 37 FTFDYVFDMADVQTTIYELCAASLVAG-SLE--G--YNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 37 F~fd~vf~~~~~q~~v~~~~~~p~v~~-~~~--g--~n~~v~ayG~t~sGKt~T~ 86 (97)
.+|+.|-+.+.--+++-+.+..|+... ++. | ....++-||..|+|||...
T Consensus 142 v~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LA 196 (398)
T PTZ00454 142 VTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLA 196 (398)
T ss_pred CCHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHH
Confidence 444444443333444544444454432 332 2 2345777999999999765
No 305
>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=57.50 E-value=6.3 Score=23.91 Aligned_cols=16 Identities=31% Similarity=0.542 Sum_probs=12.0
Q ss_pred EEEeeccCCCccceee
Q psy15017 71 TILAYGQTGSGKTYTM 86 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T~ 86 (97)
.+.-.|.+|||||.-+
T Consensus 13 ~~~i~G~nGsGKStLl 28 (137)
T PF00005_consen 13 IVAIVGPNGSGKSTLL 28 (137)
T ss_dssp EEEEEESTTSSHHHHH
T ss_pred EEEEEccCCCccccce
Confidence 3445799999998654
No 306
>PHA02624 large T antigen; Provisional
Probab=57.47 E-value=13 Score=29.70 Aligned_cols=26 Identities=27% Similarity=0.197 Sum_probs=19.3
Q ss_pred HHHHHhCCCC--EEEEeeccCCCcccee
Q psy15017 60 LVAGSLEGYN--ATILAYGQTGSGKTYT 85 (97)
Q Consensus 60 ~v~~~~~g~n--~~v~ayG~t~sGKt~T 85 (97)
+++.+++|.. .|++-||.-+||||+-
T Consensus 420 ~lk~~l~giPKk~~il~~GPpnTGKTtf 447 (647)
T PHA02624 420 ILKLIVENVPKRRYWLFKGPVNSGKTTL 447 (647)
T ss_pred HHHHHHhcCCCCeEEEEECCCCCCHHHH
Confidence 3555666653 3888999999999864
No 307
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=57.39 E-value=10 Score=30.32 Aligned_cols=28 Identities=21% Similarity=0.170 Sum_probs=18.4
Q ss_pred HHHHHhCCCCEEEEeeccCCCccceeec
Q psy15017 60 LVAGSLEGYNATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 60 ~v~~~~~g~n~~v~ayG~t~sGKt~T~~ 87 (97)
++.-+.......++-||.+|+|||....
T Consensus 194 ~~~~L~~~~~~n~lL~G~pG~GKT~l~~ 221 (731)
T TIGR02639 194 TIQVLCRRKKNNPLLVGEPGVGKTAIAE 221 (731)
T ss_pred HHHHHhcCCCCceEEECCCCCCHHHHHH
Confidence 4433434444456678999999998653
No 308
>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=57.34 E-value=12 Score=27.16 Aligned_cols=30 Identities=30% Similarity=0.338 Sum_probs=22.0
Q ss_pred HHHHHHHHHhC--CC--CEEEEeeccCCCcccee
Q psy15017 56 CAASLVAGSLE--GY--NATILAYGQTGSGKTYT 85 (97)
Q Consensus 56 ~~~p~v~~~~~--g~--n~~v~ayG~t~sGKt~T 85 (97)
+..+.++.++. |. ...+.-||.+|||||.-
T Consensus 38 TGi~~LD~~Lg~GGlp~G~iteI~G~~GsGKTtL 71 (321)
T TIGR02012 38 TGSLSLDLALGVGGLPRGRIIEIYGPESSGKTTL 71 (321)
T ss_pred CCCHHHHHHhcCCCCcCCeEEEEECCCCCCHHHH
Confidence 34466777875 55 44677899999999864
No 309
>TIGR00580 mfd transcription-repair coupling factor (mfd). All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transacribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families.
Probab=57.23 E-value=9.9 Score=31.48 Aligned_cols=25 Identities=28% Similarity=0.201 Sum_probs=16.6
Q ss_pred HHHhCCCCEEEEeeccCCCccceee
Q psy15017 62 AGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 62 ~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
.++-.+....++..|.||||||...
T Consensus 465 ~d~~~~~~~d~Ll~adTGsGKT~va 489 (926)
T TIGR00580 465 ADMESPRPMDRLVCGDVGFGKTEVA 489 (926)
T ss_pred hhhcccCcCCEEEECCCCccHHHHH
Confidence 3333444445667899999999643
No 310
>COG5519 Superfamily II helicase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=57.23 E-value=23 Score=27.87 Aligned_cols=44 Identities=30% Similarity=0.407 Sum_probs=30.0
Q ss_pred EecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 42 VFDMADVQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 42 vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
+++-..---.+|..+++|++. ++.-...-+--||+|..|||.||
T Consensus 162 ~~~~~~~~~~~y~alaa~llr-~iga~sf~vhi~~qSS~gKT~~~ 205 (562)
T COG5519 162 LADNPMMRLKVYAALAAPLLR-LIGAESFIVHIYGQSSTGKTTTM 205 (562)
T ss_pred HcCCchhHHHHHHHHHHHHHH-HhCCcceeEeecccCCCCceeee
Confidence 344344556778787777774 44333444566999999999998
No 311
>PRK13873 conjugal transfer ATPase TrbE; Provisional
Probab=57.13 E-value=4.7 Score=32.58 Aligned_cols=16 Identities=38% Similarity=0.634 Sum_probs=13.3
Q ss_pred EEEeeccCCCccceee
Q psy15017 71 TILAYGQTGSGKTYTM 86 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T~ 86 (97)
-.+..|.||||||..|
T Consensus 443 n~~I~G~tGsGKS~l~ 458 (811)
T PRK13873 443 HTLVVGPTGAGKSVLL 458 (811)
T ss_pred eEEEECCCCCCHHHHH
Confidence 4556899999999887
No 312
>COG1131 CcmA ABC-type multidrug transport system, ATPase component [Defense mechanisms]
Probab=57.11 E-value=2.9 Score=29.64 Aligned_cols=12 Identities=42% Similarity=0.736 Sum_probs=10.9
Q ss_pred eccCCCccceee
Q psy15017 75 YGQTGSGKTYTM 86 (97)
Q Consensus 75 yG~t~sGKt~T~ 86 (97)
.|.+|+|||.+|
T Consensus 37 lG~NGAGKTTll 48 (293)
T COG1131 37 LGPNGAGKTTLL 48 (293)
T ss_pred ECCCCCCHHHHH
Confidence 599999999887
No 313
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=56.93 E-value=11 Score=27.13 Aligned_cols=27 Identities=26% Similarity=0.318 Sum_probs=18.2
Q ss_pred HHHHHhCCC-CEEEEeeccCCCccceee
Q psy15017 60 LVAGSLEGY-NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 60 ~v~~~~~g~-n~~v~ayG~t~sGKt~T~ 86 (97)
+...+-.|. ...++-||..|+|||++.
T Consensus 29 l~~~i~~~~~~~~~L~~G~~G~GKt~~a 56 (367)
T PRK14970 29 LLNAIENNHLAQALLFCGPRGVGKTTCA 56 (367)
T ss_pred HHHHHHcCCCCeEEEEECCCCCCHHHHH
Confidence 333444554 346777999999998654
No 314
>TIGR03783 Bac_Flav_CT_G Bacteroides conjugation system ATPase, TraG family. Members of this family include the predicted ATPase, TraG, encoded by transfer region genes of conjugative transposons of Bacteroides, such as CTnDOT, found on the main chromosome. Members also include TraG homologs borne on plasmids in Bacteroides. The protein family is related to the conjugative transfer system ATPase VirB4.
Probab=56.91 E-value=3.7 Score=33.45 Aligned_cols=18 Identities=33% Similarity=0.613 Sum_probs=14.9
Q ss_pred CEEEEeeccCCCccceee
Q psy15017 69 NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~T~ 86 (97)
|...+..|.+|+|||..|
T Consensus 438 n~N~~I~G~sGsGKS~l~ 455 (829)
T TIGR03783 438 NRNKFILGPSGSGKSFFT 455 (829)
T ss_pred cCceEEECCCCCCHHHHH
Confidence 555678999999999876
No 315
>PHA02774 E1; Provisional
Probab=56.79 E-value=11 Score=29.77 Aligned_cols=25 Identities=24% Similarity=0.513 Sum_probs=18.5
Q ss_pred HHHHhCCC--CEEEEeeccCCCcccee
Q psy15017 61 VAGSLEGY--NATILAYGQTGSGKTYT 85 (97)
Q Consensus 61 v~~~~~g~--n~~v~ayG~t~sGKt~T 85 (97)
+..+++|. ..|+.-||..++||||-
T Consensus 424 lk~~l~~~PKknciv~~GPP~TGKS~f 450 (613)
T PHA02774 424 LKDFLKGIPKKNCLVIYGPPDTGKSMF 450 (613)
T ss_pred HHHHHhcCCcccEEEEECCCCCCHHHH
Confidence 44455553 35888999999999975
No 316
>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional
Probab=56.72 E-value=8.8 Score=27.52 Aligned_cols=28 Identities=18% Similarity=0.173 Sum_probs=18.6
Q ss_pred HHHHHHhCCCCEE-EEeeccCCCccceee
Q psy15017 59 SLVAGSLEGYNAT-ILAYGQTGSGKTYTM 86 (97)
Q Consensus 59 p~v~~~~~g~n~~-v~ayG~t~sGKt~T~ 86 (97)
...+..|+..+.. +--.|..|||||..|
T Consensus 93 ~~~r~~~~~~~~~~v~l~G~pGsGKTTLl 121 (290)
T PRK10463 93 ERNRARFAARKQLVLNLVSSPGSGKTTLL 121 (290)
T ss_pred HHHHHHHHhcCCeEEEEECCCCCCHHHHH
Confidence 3445566555544 444599999999776
No 317
>PLN03187 meiotic recombination protein DMC1 homolog; Provisional
Probab=56.67 E-value=13 Score=27.28 Aligned_cols=29 Identities=28% Similarity=0.332 Sum_probs=21.3
Q ss_pred HHHHHHHHHhCC---CCEEEEeeccCCCccce
Q psy15017 56 CAASLVAGSLEG---YNATILAYGQTGSGKTY 84 (97)
Q Consensus 56 ~~~p~v~~~~~g---~n~~v~ayG~t~sGKt~ 84 (97)
+..+-++.+|.| ......-||..|||||.
T Consensus 110 TG~~~LD~lLgGGi~~G~ItEI~G~~GsGKTq 141 (344)
T PLN03187 110 TGSQALDELLGGGIETRCITEAFGEFRSGKTQ 141 (344)
T ss_pred CCcHhHHhhcCCCCCCCeEEEEecCCCCChhH
Confidence 344678888874 24456689999999986
No 318
>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=56.55 E-value=13 Score=27.05 Aligned_cols=31 Identities=32% Similarity=0.385 Sum_probs=22.6
Q ss_pred HHHHHHHHHHhC--CC--CEEEEeeccCCCcccee
Q psy15017 55 LCAASLVAGSLE--GY--NATILAYGQTGSGKTYT 85 (97)
Q Consensus 55 ~~~~p~v~~~~~--g~--n~~v~ayG~t~sGKt~T 85 (97)
.+..+.++.+|. |. ...+..||.+|||||.-
T Consensus 37 sTGi~~LD~~Lg~GGlp~G~iteI~Gp~GsGKTtL 71 (325)
T cd00983 37 PTGSLSLDIALGIGGYPKGRIIEIYGPESSGKTTL 71 (325)
T ss_pred cCCCHHHHHHhcCCCccCCeEEEEECCCCCCHHHH
Confidence 345567788886 43 44677899999999853
No 319
>KOG0780|consensus
Probab=55.96 E-value=8.7 Score=29.13 Aligned_cols=38 Identities=26% Similarity=0.322 Sum_probs=24.8
Q ss_pred HHHHHHHHHH---HHHHHH--hCCCCEEEEeeccCCCccceee
Q psy15017 49 QTTIYELCAA---SLVAGS--LEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 49 q~~v~~~~~~---p~v~~~--~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
|..+|++.+. |-+..+ -.+..+.|+--|..|+|||.|+
T Consensus 76 ~~~vf~eL~kl~dp~~~~~~~~K~kpsVimfVGLqG~GKTTtc 118 (483)
T KOG0780|consen 76 QKAVFDELVKLLDPGKSALQPKKGKPSVIMFVGLQGSGKTTTC 118 (483)
T ss_pred HHHHHHHHHHHhCCCCcccccccCCCcEEEEEeccCCCcceeH
Confidence 6677776544 211111 1466666777799999999986
No 320
>KOG0739|consensus
Probab=55.95 E-value=6.4 Score=29.04 Aligned_cols=49 Identities=22% Similarity=0.418 Sum_probs=34.6
Q ss_pred eeccEEecCCCcHHHHHHHHHHHH-HHHHhCCCC---EEEEeeccCCCcccee
Q psy15017 37 FTFDYVFDMADVQTTIYELCAASL-VAGSLEGYN---ATILAYGQTGSGKTYT 85 (97)
Q Consensus 37 F~fd~vf~~~~~q~~v~~~~~~p~-v~~~~~g~n---~~v~ayG~t~sGKt~T 85 (97)
-+++-|-+.+..-+.+=+.++.|+ ...+|.|.- ..|+-||..|+||+|-
T Consensus 130 VkWsDVAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYL 182 (439)
T KOG0739|consen 130 VKWSDVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYL 182 (439)
T ss_pred CchhhhccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHH
Confidence 455666666666677777777774 345777664 5688999999999984
No 321
>PF02463 SMC_N: RecF/RecN/SMC N terminal domain; InterPro: IPR003395 This domain is found at the N terminus of structural maintenance of chromosomes (SMC) proteins, which function together with other proteins in a range of chromosomal transactions, including chromosome condensation, sister-chromatid cohesion, recombination, DNA repair and epigenetic silencing of gene expression []. The domain is also found in RecF and RecN proteins, which are involved in DNA metabolism and recombination.; PDB: 3HTK_A 1W1W_C 2WD5_A 3L51_A 1XEW_Y 3KTA_B 3NWC_B 1XEX_A 1GXL_C 1GXK_A ....
Probab=55.88 E-value=6.3 Score=26.14 Aligned_cols=14 Identities=36% Similarity=0.510 Sum_probs=10.9
Q ss_pred EEEeeccCCCccce
Q psy15017 71 TILAYGQTGSGKTY 84 (97)
Q Consensus 71 ~v~ayG~t~sGKt~ 84 (97)
..+-+|.+|||||-
T Consensus 26 ~~~i~G~NGsGKS~ 39 (220)
T PF02463_consen 26 LNVIVGPNGSGKSN 39 (220)
T ss_dssp EEEEEESTTSSHHH
T ss_pred CEEEEcCCCCCHHH
Confidence 34467999999974
No 322
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=55.80 E-value=13 Score=27.01 Aligned_cols=35 Identities=29% Similarity=0.267 Sum_probs=21.8
Q ss_pred cHHHHHHHHHHHHHHHHhCCC-CEEEEeeccCCCccceee
Q psy15017 48 VQTTIYELCAASLVAGSLEGY-NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 48 ~q~~v~~~~~~p~v~~~~~g~-n~~v~ayG~t~sGKt~T~ 86 (97)
.|+.+-+. +.+.+..|. .-.++-+|..|+|||.+.
T Consensus 20 Gq~~~~~~----l~~~~~~~~~~h~~L~~Gp~G~GKTtla 55 (363)
T PRK14961 20 GQKHIVTA----ISNGLSLGRIHHAWLLSGTRGVGKTTIA 55 (363)
T ss_pred ChHHHHHH----HHHHHHcCCCCeEEEEecCCCCCHHHHH
Confidence 55555443 333344443 445678899999999754
No 323
>cd03279 ABC_sbcCD SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini.
Probab=55.50 E-value=5 Score=26.77 Aligned_cols=16 Identities=38% Similarity=0.638 Sum_probs=12.2
Q ss_pred EEEeeccCCCccceee
Q psy15017 71 TILAYGQTGSGKTYTM 86 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T~ 86 (97)
.+.-.|.+|||||..|
T Consensus 30 ~~~i~G~NGsGKSTll 45 (213)
T cd03279 30 LFLICGPTGAGKSTIL 45 (213)
T ss_pred EEEEECCCCCCHHHHH
Confidence 3445699999998765
No 324
>PF13166 AAA_13: AAA domain
Probab=55.26 E-value=7.6 Score=30.53 Aligned_cols=14 Identities=50% Similarity=0.819 Sum_probs=11.2
Q ss_pred EEEeeccCCCccce
Q psy15017 71 TILAYGQTGSGKTY 84 (97)
Q Consensus 71 ~v~ayG~t~sGKt~ 84 (97)
.-+-||..|||||.
T Consensus 18 ~n~IYG~NGsGKSt 31 (712)
T PF13166_consen 18 INLIYGRNGSGKST 31 (712)
T ss_pred eEEEECCCCCCHHH
Confidence 34579999999973
No 325
>TIGR01970 DEAH_box_HrpB ATP-dependent helicase HrpB. This model represents HrpB, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria, but also in a few species of other lineages. The member from Rhizobium meliloti has been designated HelO. HrpB is typically about 800 residues in length, while its paralog HrpA (TIGR01967), also uncharacterized, is about 1300 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=54.90 E-value=12 Score=30.67 Aligned_cols=16 Identities=19% Similarity=0.405 Sum_probs=12.5
Q ss_pred EEEEeeccCCCcccee
Q psy15017 70 ATILAYGQTGSGKTYT 85 (97)
Q Consensus 70 ~~v~ayG~t~sGKt~T 85 (97)
..++..|.||||||.-
T Consensus 18 ~~vIi~a~TGSGKTT~ 33 (819)
T TIGR01970 18 PQVVLEAPPGAGKSTA 33 (819)
T ss_pred CcEEEECCCCCCHHHH
Confidence 3566789999999864
No 326
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional
Probab=54.26 E-value=11 Score=29.50 Aligned_cols=18 Identities=28% Similarity=0.466 Sum_probs=14.2
Q ss_pred CCEEEEeeccCCCcccee
Q psy15017 68 YNATILAYGQTGSGKTYT 85 (97)
Q Consensus 68 ~n~~v~ayG~t~sGKt~T 85 (97)
.+..|+-+|.+|+||++.
T Consensus 347 ~~~pvli~Ge~GtGK~~~ 364 (638)
T PRK11388 347 SSFPVLLCGEEGVGKALL 364 (638)
T ss_pred cCCCEEEECCCCcCHHHH
Confidence 455678899999999754
No 327
>TIGR00554 panK_bact pantothenate kinase, bacterial type. Shown to be a homodimer in E. coli. This enzyme catalyzes the rate-limiting step in the biosynthesis of coenzyme A. It is very well conserved from E. coli to B. subtilis, but differs considerably from known eukaryotic forms, described in a separate model.
Probab=54.07 E-value=14 Score=26.37 Aligned_cols=17 Identities=29% Similarity=0.268 Sum_probs=13.0
Q ss_pred EEEEeeccCCCccceee
Q psy15017 70 ATILAYGQTGSGKTYTM 86 (97)
Q Consensus 70 ~~v~ayG~t~sGKt~T~ 86 (97)
..|---|.+|||||.++
T Consensus 63 ~IIGIaG~~GSGKSTla 79 (290)
T TIGR00554 63 YIISIAGSVAVGKSTTA 79 (290)
T ss_pred EEEEEECCCCCCHHHHH
Confidence 34445599999999876
No 328
>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop. They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.
Probab=53.98 E-value=20 Score=22.29 Aligned_cols=17 Identities=41% Similarity=0.556 Sum_probs=13.1
Q ss_pred EEEEeeccCCCccceee
Q psy15017 70 ATILAYGQTGSGKTYTM 86 (97)
Q Consensus 70 ~~v~ayG~t~sGKt~T~ 86 (97)
..|+=+|.-|+|||.-.
T Consensus 16 ~vi~L~GdLGaGKTtf~ 32 (123)
T PF02367_consen 16 DVILLSGDLGAGKTTFV 32 (123)
T ss_dssp EEEEEEESTTSSHHHHH
T ss_pred CEEEEECCCCCCHHHHH
Confidence 35666799999998643
No 329
>PTZ00035 Rad51 protein; Provisional
Probab=53.90 E-value=12 Score=27.26 Aligned_cols=31 Identities=19% Similarity=0.268 Sum_probs=22.7
Q ss_pred HHHHHHHHHhCC-C--CEEEEeeccCCCccceee
Q psy15017 56 CAASLVAGSLEG-Y--NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 56 ~~~p~v~~~~~g-~--n~~v~ayG~t~sGKt~T~ 86 (97)
+..+-++.+|.| . ...+.-+|.+|+|||.-+
T Consensus 102 TG~~~LD~lLgGGi~~G~iteI~G~~GsGKT~l~ 135 (337)
T PTZ00035 102 TGSTQLDKLLGGGIETGSITELFGEFRTGKTQLC 135 (337)
T ss_pred CCcHHHHHHhCCCCCCCeEEEEECCCCCchhHHH
Confidence 445678888864 3 555667899999998654
No 330
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=53.89 E-value=6.5 Score=29.43 Aligned_cols=16 Identities=56% Similarity=0.758 Sum_probs=13.2
Q ss_pred EEEEeeccCCCcccee
Q psy15017 70 ATILAYGQTGSGKTYT 85 (97)
Q Consensus 70 ~~v~ayG~t~sGKt~T 85 (97)
..++-+|.+|+|||+.
T Consensus 109 ~~iLl~Gp~GtGKT~l 124 (412)
T PRK05342 109 SNILLIGPTGSGKTLL 124 (412)
T ss_pred ceEEEEcCCCCCHHHH
Confidence 5677889999999854
No 331
>PF14553 YqbF: YqbF, hypothetical protein domain; PDB: 2HJQ_A.
Probab=53.86 E-value=6.6 Score=20.12 Aligned_cols=10 Identities=40% Similarity=0.388 Sum_probs=7.1
Q ss_pred CccceeecCC
Q psy15017 80 SGKTYTMGTG 89 (97)
Q Consensus 80 sGKt~T~~G~ 89 (97)
-||||+.+|-
T Consensus 2 kGktY~~~g~ 11 (43)
T PF14553_consen 2 KGKTYYAMGH 11 (43)
T ss_dssp S-SEEEETTE
T ss_pred CCcEEEEeee
Confidence 4899999874
No 332
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=53.74 E-value=8.7 Score=30.38 Aligned_cols=48 Identities=35% Similarity=0.405 Sum_probs=33.9
Q ss_pred eeeeccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCccceeec
Q psy15017 35 KSFTFDYVFDMADVQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 35 ~~F~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T~~ 87 (97)
+.|....=|.+...|...++.+ ++.+-.|....+ .+|.+||||++.+.
T Consensus 3 ~~~~~~~~~~~~~~Q~~ai~~l----~~~~~~~~~~~l-l~Gl~gs~ka~lia 50 (652)
T PRK05298 3 KPFKLVSPYKPAGDQPQAIEEL----VEGIEAGEKHQT-LLGVTGSGKTFTMA 50 (652)
T ss_pred CCcccccCCCCChHHHHHHHHH----HHhhhcCCCcEE-EEcCCCcHHHHHHH
Confidence 4566667788888999988874 444445532233 67999999999863
No 333
>PF11602 NTPase_P4: ATPase P4 of dsRNA bacteriophage phi-12; InterPro: IPR020973 This entry represents P4, a packaging motor which is involved in the packaging of Pseudomonas bacteriophage genomes into preformed capsids using ATP. The P4 protein is located at the vertices of the icosahedral capsid. ATP drives RNA translocation through cooperative conformational changes []. ; PDB: 1W4C_R 1W49_C 1W44_C 2VHT_B 2VHQ_C 1W48_C 1W4A_B 2VHJ_A 1W4B_B 1W47_A ....
Probab=53.67 E-value=6 Score=28.30 Aligned_cols=21 Identities=29% Similarity=0.406 Sum_probs=16.3
Q ss_pred CEEEEeeccCCCccceeecCC
Q psy15017 69 NATILAYGQTGSGKTYTMGTG 89 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~T~~G~ 89 (97)
++...+.|.+|||||.+|.|.
T Consensus 111 SGv~vvvG~~gsgKs~~Ln~k 131 (320)
T PF11602_consen 111 SGVHVVVGKTGSGKSEWLNGK 131 (320)
T ss_dssp SEEEEEE-SSSSSHHHHHHTT
T ss_pred cceEEEEcCCCCccceecCCC
Confidence 556778899999999988654
No 334
>PRK00454 engB GTP-binding protein YsxC; Reviewed
Probab=53.66 E-value=8.5 Score=24.67 Aligned_cols=28 Identities=14% Similarity=0.121 Sum_probs=20.7
Q ss_pred HHHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 59 SLVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 59 p~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
|.++......-..|...|.+|+|||..+
T Consensus 14 ~~~~~~~~~~~~~v~ivG~~~~GKSsli 41 (196)
T PRK00454 14 PKLEQLPPDDGPEIAFAGRSNVGKSSLI 41 (196)
T ss_pred ccHhhCCCCCCCEEEEEcCCCCCHHHHH
Confidence 4566666555556778899999998765
No 335
>KOG3354|consensus
Probab=53.59 E-value=11 Score=25.11 Aligned_cols=18 Identities=33% Similarity=0.604 Sum_probs=14.4
Q ss_pred CCCEEEEeeccCCCccce
Q psy15017 67 GYNATILAYGQTGSGKTY 84 (97)
Q Consensus 67 g~n~~v~ayG~t~sGKt~ 84 (97)
-+.-++..+|.+||||+.
T Consensus 10 ~~k~~i~vmGvsGsGKST 27 (191)
T KOG3354|consen 10 PFKYVIVVMGVSGSGKST 27 (191)
T ss_pred CCceeEEEEecCCCChhh
Confidence 345578899999999973
No 336
>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=53.44 E-value=27 Score=25.91 Aligned_cols=38 Identities=16% Similarity=0.132 Sum_probs=21.5
Q ss_pred CcHHHHHHHHHHHHHHHHh--CCCCEEEEeeccCCCccce
Q psy15017 47 DVQTTIYELCAASLVAGSL--EGYNATILAYGQTGSGKTY 84 (97)
Q Consensus 47 ~~q~~v~~~~~~p~v~~~~--~g~n~~v~ayG~t~sGKt~ 84 (97)
..+++.-+..+.-+..... ...+-.+.=.|..|+|||.
T Consensus 54 ~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKSt 93 (361)
T smart00763 54 FGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSS 93 (361)
T ss_pred cCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHH
Confidence 3455555555543332232 2234555666999999974
No 337
>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=53.40 E-value=9.3 Score=30.75 Aligned_cols=27 Identities=19% Similarity=0.278 Sum_probs=18.0
Q ss_pred HHHHHhCCCCEEEEeeccCCCccceeec
Q psy15017 60 LVAGSLEGYNATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 60 ~v~~~~~g~n~~v~ayG~t~sGKt~T~~ 87 (97)
.+..++.+.. .++--|..|+|||++|-
T Consensus 360 Av~~i~~s~~-~~il~G~aGTGKTtll~ 386 (744)
T TIGR02768 360 AVRHVTGSGD-IAVVVGRAGTGKSTMLK 386 (744)
T ss_pred HHHHHhcCCC-EEEEEecCCCCHHHHHH
Confidence 3444555433 44566999999999873
No 338
>PRK09354 recA recombinase A; Provisional
Probab=53.33 E-value=16 Score=26.94 Aligned_cols=31 Identities=26% Similarity=0.304 Sum_probs=22.5
Q ss_pred HHHHHHHHHHhC--CC--CEEEEeeccCCCcccee
Q psy15017 55 LCAASLVAGSLE--GY--NATILAYGQTGSGKTYT 85 (97)
Q Consensus 55 ~~~~p~v~~~~~--g~--n~~v~ayG~t~sGKt~T 85 (97)
.+..+.++.+|. |. ...+.-||.+|||||.-
T Consensus 42 sTGi~~LD~~LG~GGip~G~IteI~G~~GsGKTtL 76 (349)
T PRK09354 42 STGSLALDIALGIGGLPRGRIVEIYGPESSGKTTL 76 (349)
T ss_pred cCCcHHHHHHhcCCCCcCCeEEEEECCCCCCHHHH
Confidence 345567788887 33 44677899999999863
No 339
>KOG0160|consensus
Probab=53.29 E-value=12 Score=30.82 Aligned_cols=23 Identities=39% Similarity=0.673 Sum_probs=20.0
Q ss_pred HhCCCCEEEEeeccCCCccceee
Q psy15017 64 SLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 64 ~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
.-++.|.+|..-|.+|+|||.|+
T Consensus 89 ~~~~~~QsIivsGESGAgkT~~a 111 (862)
T KOG0160|consen 89 TPDGVNQSIIVSGESGAGKTETA 111 (862)
T ss_pred hhccCCceeeeeCCCCCchhHHH
Confidence 34788999999999999999775
No 340
>PRK13891 conjugal transfer protein TrbE; Provisional
Probab=53.13 E-value=5.3 Score=32.59 Aligned_cols=17 Identities=29% Similarity=0.677 Sum_probs=14.0
Q ss_pred EEEEeeccCCCccceee
Q psy15017 70 ATILAYGQTGSGKTYTM 86 (97)
Q Consensus 70 ~~v~ayG~t~sGKt~T~ 86 (97)
+-.+..|.||||||..+
T Consensus 489 gh~~I~G~tGsGKS~l~ 505 (852)
T PRK13891 489 GHTFMFGPTGAGKSTHL 505 (852)
T ss_pred CeEEEECCCCCCHHHHH
Confidence 34577899999999876
No 341
>COG4148 ModC ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=52.85 E-value=6 Score=28.82 Aligned_cols=12 Identities=50% Similarity=0.927 Sum_probs=10.4
Q ss_pred eccCCCccceee
Q psy15017 75 YGQTGSGKTYTM 86 (97)
Q Consensus 75 yG~t~sGKt~T~ 86 (97)
||.+|||||.-+
T Consensus 30 FG~SGsGKTsli 41 (352)
T COG4148 30 FGPSGSGKTSLI 41 (352)
T ss_pred ecCCCCChhhHH
Confidence 799999999755
No 342
>KOG0745|consensus
Probab=52.85 E-value=6.9 Score=30.12 Aligned_cols=15 Identities=53% Similarity=0.833 Sum_probs=12.1
Q ss_pred EEEEeeccCCCccce
Q psy15017 70 ATILAYGQTGSGKTY 84 (97)
Q Consensus 70 ~~v~ayG~t~sGKt~ 84 (97)
+.|+-.|.||||||.
T Consensus 227 SNvLllGPtGsGKTl 241 (564)
T KOG0745|consen 227 SNVLLLGPTGSGKTL 241 (564)
T ss_pred ccEEEECCCCCchhH
Confidence 346678999999985
No 343
>TIGR03117 cas_csf4 CRISPR-associated DEAD/DEAH-box helicase Csf4. Members of this family show up near CRISPR repeats in Acidithiobacillus ferrooxidans ATCC 23270, Azoarcus sp. EbN1, and Rhodoferax ferrireducens DSM 15236. In the latter two species, the CRISPR/cas locus is found on a plasmid. This family is one of several characteristic of a type of CRISPR-associated (cas) gene cluster we designate Aferr after A. ferrooxidans, where it is both chromosomal and the only type of cas gene cluster found. The gene is designated csf4 (CRISPR/cas Subtype as in A. ferrooxidans protein 1), as it lies farthest (fourth closest) from the repeats in the A. ferrooxidans genome.
Probab=52.82 E-value=16 Score=29.13 Aligned_cols=31 Identities=26% Similarity=0.297 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCcccee
Q psy15017 49 QTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 49 q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T 85 (97)
|.+++..+. +.+-++ ..+++-..||+|||+.
T Consensus 2 Q~~~~~~i~----~al~~~--~~lliEA~TGtGKTlA 32 (636)
T TIGR03117 2 QALFYLNCL----TSLRQK--RIGMLEASTGVGKTLA 32 (636)
T ss_pred HHHHHHHHH----HHHhcC--CeEEEEcCCCCcHHHH
Confidence 666665532 222233 4577889999999954
No 344
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=52.74 E-value=14 Score=29.91 Aligned_cols=33 Identities=36% Similarity=0.396 Sum_probs=21.3
Q ss_pred CCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCccce
Q psy15017 46 ADVQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTY 84 (97)
Q Consensus 46 ~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~ 84 (97)
+..|+..++.+... + .+++ ..+-+|.||||||-
T Consensus 200 n~~Q~~a~~~i~~~----~-~~~~-~~Ll~GvTGSGKTE 232 (730)
T COG1198 200 NQEQQAAVEAILSS----L-GGFA-PFLLDGVTGSGKTE 232 (730)
T ss_pred CHHHHHHHHHHHHh----c-cccc-ceeEeCCCCCcHHH
Confidence 45677776664332 2 4444 45567999999984
No 345
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=52.68 E-value=3 Score=34.62 Aligned_cols=15 Identities=40% Similarity=0.545 Sum_probs=11.6
Q ss_pred eeccCCCccceeecC
Q psy15017 74 AYGQTGSGKTYTMGT 88 (97)
Q Consensus 74 ayG~t~sGKt~T~~G 88 (97)
.-=.||+|||||+.+
T Consensus 64 ~~M~TGtGKT~~~~~ 78 (986)
T PRK15483 64 IKMETGTGKTYVYTR 78 (986)
T ss_pred EEeCCCCCHHHHHHH
Confidence 345899999997754
No 346
>PRK12337 2-phosphoglycerate kinase; Provisional
Probab=52.67 E-value=11 Score=28.95 Aligned_cols=20 Identities=25% Similarity=0.283 Sum_probs=16.7
Q ss_pred CCCEEEEeeccCCCccceee
Q psy15017 67 GYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 67 g~n~~v~ayG~t~sGKt~T~ 86 (97)
.....++..|.+|+|||.+.
T Consensus 253 k~p~vil~~G~~G~GKSt~a 272 (475)
T PRK12337 253 PRPLHVLIGGVSGVGKSVLA 272 (475)
T ss_pred CCCeEEEEECCCCCCHHHHH
Confidence 34778889999999999765
No 347
>KOG0923|consensus
Probab=52.46 E-value=10 Score=30.76 Aligned_cols=20 Identities=35% Similarity=0.557 Sum_probs=15.7
Q ss_pred CCCEEEEeeccCCCccceee
Q psy15017 67 GYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 67 g~n~~v~ayG~t~sGKt~T~ 86 (97)
..+..++.-|.||||||.-+
T Consensus 278 ~e~QVLiI~GeTGSGKTTQi 297 (902)
T KOG0923|consen 278 KEHQVLIIVGETGSGKTTQI 297 (902)
T ss_pred HhCcEEEEEcCCCCCccccc
Confidence 34667888899999998654
No 348
>PRK05541 adenylylsulfate kinase; Provisional
Probab=52.41 E-value=8.4 Score=24.69 Aligned_cols=15 Identities=47% Similarity=0.552 Sum_probs=11.8
Q ss_pred EEEeeccCCCcccee
Q psy15017 71 TILAYGQTGSGKTYT 85 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T 85 (97)
.|.-.|.+|||||..
T Consensus 9 ~I~i~G~~GsGKst~ 23 (176)
T PRK05541 9 VIWITGLAGSGKTTI 23 (176)
T ss_pred EEEEEcCCCCCHHHH
Confidence 455679999999854
No 349
>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=52.29 E-value=8.3 Score=29.08 Aligned_cols=18 Identities=50% Similarity=0.588 Sum_probs=14.6
Q ss_pred CEEEEeeccCCCccceee
Q psy15017 69 NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~T~ 86 (97)
...++.-|.+|+|||.|.
T Consensus 99 p~vi~~vG~~GsGKTTta 116 (428)
T TIGR00959 99 PTVILMVGLQGSGKTTTC 116 (428)
T ss_pred CEEEEEECCCCCcHHHHH
Confidence 456777799999999884
No 350
>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=52.11 E-value=28 Score=26.39 Aligned_cols=18 Identities=44% Similarity=0.549 Sum_probs=14.4
Q ss_pred CEEEEeeccCCCccceee
Q psy15017 69 NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~T~ 86 (97)
...|.-.|.+|+|||.|.
T Consensus 100 ~~vi~lvG~~GvGKTTta 117 (429)
T TIGR01425 100 QNVIMFVGLQGSGKTTTC 117 (429)
T ss_pred CeEEEEECCCCCCHHHHH
Confidence 345666799999999886
No 351
>PRK10867 signal recognition particle protein; Provisional
Probab=51.94 E-value=8.7 Score=29.03 Aligned_cols=18 Identities=39% Similarity=0.549 Sum_probs=14.4
Q ss_pred CEEEEeeccCCCccceee
Q psy15017 69 NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~T~ 86 (97)
...++..|.+|+|||.|.
T Consensus 100 p~vI~~vG~~GsGKTTta 117 (433)
T PRK10867 100 PTVIMMVGLQGAGKTTTA 117 (433)
T ss_pred CEEEEEECCCCCcHHHHH
Confidence 456667799999999875
No 352
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=51.86 E-value=8.9 Score=26.12 Aligned_cols=17 Identities=29% Similarity=0.458 Sum_probs=14.0
Q ss_pred CEEEEeeccCCCcccee
Q psy15017 69 NATILAYGQTGSGKTYT 85 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~T 85 (97)
...+.-+|.+|+|||..
T Consensus 24 g~~~~i~G~~G~GKTtl 40 (230)
T PRK08533 24 GSLILIEGDESTGKSIL 40 (230)
T ss_pred CcEEEEECCCCCCHHHH
Confidence 34677889999999976
No 353
>PRK13946 shikimate kinase; Provisional
Probab=51.62 E-value=7.5 Score=25.33 Aligned_cols=15 Identities=33% Similarity=0.592 Sum_probs=12.7
Q ss_pred EEEeeccCCCcccee
Q psy15017 71 TILAYGQTGSGKTYT 85 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T 85 (97)
.|+..|..|||||..
T Consensus 12 ~I~l~G~~GsGKsti 26 (184)
T PRK13946 12 TVVLVGLMGAGKSTV 26 (184)
T ss_pred eEEEECCCCCCHHHH
Confidence 578889999999853
No 354
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=51.55 E-value=12 Score=26.92 Aligned_cols=18 Identities=28% Similarity=0.608 Sum_probs=13.7
Q ss_pred CCEEEEeeccCCCcccee
Q psy15017 68 YNATILAYGQTGSGKTYT 85 (97)
Q Consensus 68 ~n~~v~ayG~t~sGKt~T 85 (97)
.+.-|+-.|.+|+||++.
T Consensus 28 ~~~pVlI~GE~GtGK~~l 45 (326)
T PRK11608 28 LDKPVLIIGERGTGKELI 45 (326)
T ss_pred CCCCEEEECCCCCcHHHH
Confidence 345567799999999754
No 355
>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=51.17 E-value=8.3 Score=26.89 Aligned_cols=14 Identities=43% Similarity=0.721 Sum_probs=10.8
Q ss_pred EeeccCCCccceee
Q psy15017 73 LAYGQTGSGKTYTM 86 (97)
Q Consensus 73 ~ayG~t~sGKt~T~ 86 (97)
..-|.+|||||-.+
T Consensus 17 viIG~sGSGKT~li 30 (241)
T PF04665_consen 17 VIIGKSGSGKTTLI 30 (241)
T ss_pred EEECCCCCCHHHHH
Confidence 34699999998643
No 356
>KOG0925|consensus
Probab=51.09 E-value=10 Score=29.64 Aligned_cols=20 Identities=45% Similarity=0.554 Sum_probs=16.2
Q ss_pred CCCEEEEeeccCCCccceee
Q psy15017 67 GYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 67 g~n~~v~ayG~t~sGKt~T~ 86 (97)
..|.++.--|.||||||.-+
T Consensus 60 ~~nQ~~v~vGetgsGKttQi 79 (699)
T KOG0925|consen 60 LNNQIIVLVGETGSGKTTQI 79 (699)
T ss_pred hcCceEEEEecCCCCccccC
Confidence 56778888899999998643
No 357
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=51.04 E-value=7 Score=30.99 Aligned_cols=15 Identities=40% Similarity=0.554 Sum_probs=12.3
Q ss_pred EEeeccCCCccceee
Q psy15017 72 ILAYGQTGSGKTYTM 86 (97)
Q Consensus 72 v~ayG~t~sGKt~T~ 86 (97)
++..+..|||||.||
T Consensus 18 ~lV~AgpGSGKT~vL 32 (672)
T PRK10919 18 CLVLAGAGSGKTRVI 32 (672)
T ss_pred EEEEecCCCCHHHHH
Confidence 445678999999997
No 358
>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=50.97 E-value=22 Score=25.62 Aligned_cols=30 Identities=20% Similarity=0.258 Sum_probs=20.9
Q ss_pred HHHHHHHHhCC-C--CEEEEeeccCCCccceee
Q psy15017 57 AASLVAGSLEG-Y--NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 57 ~~p~v~~~~~g-~--n~~v~ayG~t~sGKt~T~ 86 (97)
..+-++.++.| . ...+..||..|+|||.-+
T Consensus 81 g~~~lD~ll~gGi~~g~i~~i~G~~g~GKT~l~ 113 (316)
T TIGR02239 81 GSKELDKLLGGGIETGSITEIFGEFRTGKTQLC 113 (316)
T ss_pred CCHHHHHHhcCCCCCCeEEEEECCCCCCcCHHH
Confidence 33567777753 2 445678999999998654
No 359
>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=50.94 E-value=8.2 Score=30.80 Aligned_cols=17 Identities=41% Similarity=0.728 Sum_probs=13.9
Q ss_pred EEEEeeccCCCccceee
Q psy15017 70 ATILAYGQTGSGKTYTM 86 (97)
Q Consensus 70 ~~v~ayG~t~sGKt~T~ 86 (97)
-.++-||.+|+|||+.+
T Consensus 213 ~giLL~GppGtGKT~la 229 (733)
T TIGR01243 213 KGVLLYGPPGTGKTLLA 229 (733)
T ss_pred ceEEEECCCCCChHHHH
Confidence 35778999999999754
No 360
>TIGR03265 PhnT2 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein. This ABC transporter ATP-binding protein is found in a number of genomes in operon-like contexts strongly suggesting a substrate specificity for 2-aminoethylphosphonate (2-AEP). The characterized PhnSTUV system is absent in the genomes in which this system is found. These genomes encode systems for the catabolism of 2-AEP, making the need for a 2-AEP-specific transporter likely.
Probab=50.92 E-value=7.4 Score=28.37 Aligned_cols=14 Identities=36% Similarity=0.567 Sum_probs=11.6
Q ss_pred EeeccCCCccceee
Q psy15017 73 LAYGQTGSGKTYTM 86 (97)
Q Consensus 73 ~ayG~t~sGKt~T~ 86 (97)
--.|.+|+|||..|
T Consensus 34 ~l~GpsGsGKSTLL 47 (353)
T TIGR03265 34 CLLGPSGCGKTTLL 47 (353)
T ss_pred EEECCCCCCHHHHH
Confidence 34799999999877
No 361
>cd03242 ABC_RecF RecF is a recombinational DNA repair ATPase that maintains replication in the presence of DNA damage. When replication is prematurely disrupted by DNA damage, several recF pathway gene products play critical roles processing the arrested replication fork, allowing it to resume and complete its task. This CD represents the nucleotide binding domain of RecF. RecF belongs to a large superfamily of ABC transporters involved in the transport of a wide variety of different compounds including 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 with 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=50.91 E-value=6.1 Score=27.44 Aligned_cols=13 Identities=31% Similarity=0.503 Sum_probs=10.5
Q ss_pred eeccCCCccceee
Q psy15017 74 AYGQTGSGKTYTM 86 (97)
Q Consensus 74 ayG~t~sGKt~T~ 86 (97)
-+|.+|+|||--|
T Consensus 26 i~G~NGsGKS~ll 38 (270)
T cd03242 26 LVGENAQGKTNLL 38 (270)
T ss_pred EECCCCCCHHHHH
Confidence 4799999998543
No 362
>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional
Probab=50.74 E-value=9.8 Score=25.13 Aligned_cols=11 Identities=36% Similarity=0.435 Sum_probs=9.2
Q ss_pred eccCCCcccee
Q psy15017 75 YGQTGSGKTYT 85 (97)
Q Consensus 75 yG~t~sGKt~T 85 (97)
-|.+|||||.-
T Consensus 12 vG~sgsGKTTL 22 (173)
T PRK10751 12 AAWSGTGKTTL 22 (173)
T ss_pred ECCCCChHHHH
Confidence 49999999964
No 363
>TIGR02785 addA_Gpos recombination helicase AddA, Firmicutes type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the Firmicutes (as modeled here) and the alphaproteobacteria, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=50.60 E-value=6.8 Score=33.26 Aligned_cols=19 Identities=37% Similarity=0.468 Sum_probs=14.2
Q ss_pred CEEEEeeccCCCccceeec
Q psy15017 69 NATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~T~~ 87 (97)
+..++.-+..|||||++|.
T Consensus 14 ~~~~lv~A~AGsGKT~~lv 32 (1232)
T TIGR02785 14 GQNILVSASAGSGKTAVLV 32 (1232)
T ss_pred CCCEEEEecCCCcHHHHHH
Confidence 3345567899999999873
No 364
>PRK05973 replicative DNA helicase; Provisional
Probab=50.54 E-value=13 Score=25.72 Aligned_cols=24 Identities=21% Similarity=0.259 Sum_probs=16.2
Q ss_pred HHHhCCC--CEEEEeeccCCCcccee
Q psy15017 62 AGSLEGY--NATILAYGQTGSGKTYT 85 (97)
Q Consensus 62 ~~~~~g~--n~~v~ayG~t~sGKt~T 85 (97)
+.+..|. ...++..|.+|+|||.-
T Consensus 55 ~~l~GGl~~Gsl~LIaG~PG~GKT~l 80 (237)
T PRK05973 55 EELFSQLKPGDLVLLGARPGHGKTLL 80 (237)
T ss_pred HHhcCCCCCCCEEEEEeCCCCCHHHH
Confidence 3444454 34566789999999863
No 365
>TIGR01054 rgy reverse gyrase. Generally, these gyrases are encoded as a single polypeptide. An exception was found in Methanopyrus kandleri, where enzyme is split within the topoisomerase domain, yielding a heterodimer of gene products designated RgyB and RgyA.
Probab=50.44 E-value=15 Score=31.24 Aligned_cols=24 Identities=29% Similarity=0.273 Sum_probs=18.7
Q ss_pred HHHHHhCCCCEEEEeeccCCCcccee
Q psy15017 60 LVAGSLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 60 ~v~~~~~g~n~~v~ayG~t~sGKt~T 85 (97)
.+..++.|.+.. +-+.||||||..
T Consensus 86 ~i~~il~G~d~v--i~ApTGsGKT~f 109 (1171)
T TIGR01054 86 WAKRVLRGDSFA--IIAPTGVGKTTF 109 (1171)
T ss_pred HHHHHhCCCeEE--EECCCCCCHHHH
Confidence 456788998755 567999999963
No 366
>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=50.42 E-value=15 Score=24.64 Aligned_cols=25 Identities=20% Similarity=0.181 Sum_probs=15.5
Q ss_pred HHHhCCC--CEEEEeeccCCCccceee
Q psy15017 62 AGSLEGY--NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 62 ~~~~~g~--n~~v~ayG~t~sGKt~T~ 86 (97)
+.++.|. ...+.-.|.+|+|||..+
T Consensus 4 D~~~~Gl~~G~l~lI~G~~G~GKT~~~ 30 (242)
T cd00984 4 DNLTGGLQPGDLIIIAARPSMGKTAFA 30 (242)
T ss_pred hhhhcCCCCCeEEEEEeCCCCCHHHHH
Confidence 3444444 224555699999998643
No 367
>TIGR00602 rad24 checkpoint protein rad24. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=50.41 E-value=13 Score=29.55 Aligned_cols=16 Identities=38% Similarity=0.677 Sum_probs=13.5
Q ss_pred EEEeeccCCCccceee
Q psy15017 71 TILAYGQTGSGKTYTM 86 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T~ 86 (97)
.++-+|.+|+|||.++
T Consensus 112 illL~GP~GsGKTTl~ 127 (637)
T TIGR00602 112 ILLITGPSGCGKSTTI 127 (637)
T ss_pred EEEEECCCCCCHHHHH
Confidence 4677899999999875
No 368
>PRK11054 helD DNA helicase IV; Provisional
Probab=50.30 E-value=6.7 Score=31.28 Aligned_cols=17 Identities=35% Similarity=0.516 Sum_probs=13.9
Q ss_pred EEeeccCCCccceeecC
Q psy15017 72 ILAYGQTGSGKTYTMGT 88 (97)
Q Consensus 72 v~ayG~t~sGKt~T~~G 88 (97)
++..|..|||||.||..
T Consensus 212 ~lV~agaGSGKT~vl~~ 228 (684)
T PRK11054 212 LLVLAGAGSGKTSVLVA 228 (684)
T ss_pred eEEEEeCCCCHHHHHHH
Confidence 45678899999999854
No 369
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=50.12 E-value=16 Score=30.11 Aligned_cols=21 Identities=38% Similarity=0.615 Sum_probs=13.9
Q ss_pred HHhCCCCEEEEeeccCCCccce
Q psy15017 63 GSLEGYNATILAYGQTGSGKTY 84 (97)
Q Consensus 63 ~~~~g~n~~v~ayG~t~sGKt~ 84 (97)
.++.... .++--|.||||||.
T Consensus 60 ~ai~~~~-vvii~getGsGKTT 80 (845)
T COG1643 60 KAIEQNQ-VVIIVGETGSGKTT 80 (845)
T ss_pred HHHHhCC-EEEEeCCCCCChHH
Confidence 3444444 44455999999985
No 370
>KOG1970|consensus
Probab=50.09 E-value=23 Score=28.02 Aligned_cols=38 Identities=18% Similarity=0.212 Sum_probs=23.7
Q ss_pred cHHHHHHHHHHHHHHHHh------C--CCCEEEEeeccCCCccceee
Q psy15017 48 VQTTIYELCAASLVAGSL------E--GYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 48 ~q~~v~~~~~~p~v~~~~------~--g~n~~v~ayG~t~sGKt~T~ 86 (97)
.+-.|++.-+..+-..+. . |.+. ++--|++|+|||.|+
T Consensus 82 eeLAVHkkKI~eVk~WL~~~~~~~~~l~~~i-LLltGPsGcGKSTtv 127 (634)
T KOG1970|consen 82 EELAVHKKKISEVKQWLKQVAEFTPKLGSRI-LLLTGPSGCGKSTTV 127 (634)
T ss_pred HHHhhhHHhHHHHHHHHHHHHHhccCCCceE-EEEeCCCCCCchhHH
Confidence 566777765554333332 2 3334 445599999999987
No 371
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=50.08 E-value=7.7 Score=25.00 Aligned_cols=27 Identities=30% Similarity=0.352 Sum_probs=16.1
Q ss_pred HHHHHhCCC---CEEEEeeccCCCccceee
Q psy15017 60 LVAGSLEGY---NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 60 ~v~~~~~g~---n~~v~ayG~t~sGKt~T~ 86 (97)
-.+.++.|. ....+-+|.+|+|||+-+
T Consensus 20 ~~~~li~g~~~~g~l~~i~g~~g~GKT~~~ 49 (193)
T PF13481_consen 20 PLDWLIDGLLPRGELTLIAGPPGSGKTTLA 49 (193)
T ss_dssp ---EEETTEE-TTSEEEEEECSTSSHHHHH
T ss_pred CcceeECCcccCCeEEEEEeCCCCCHHHHH
Confidence 344455443 234566899999998754
No 372
>PLN02200 adenylate kinase family protein
Probab=49.83 E-value=9.9 Score=26.07 Aligned_cols=16 Identities=31% Similarity=0.397 Sum_probs=13.2
Q ss_pred CEEEEeeccCCCccce
Q psy15017 69 NATILAYGQTGSGKTY 84 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~ 84 (97)
...|+..|..|||||.
T Consensus 43 ~~ii~I~G~PGSGKsT 58 (234)
T PLN02200 43 PFITFVLGGPGSGKGT 58 (234)
T ss_pred CEEEEEECCCCCCHHH
Confidence 3467889999999975
No 373
>COG4555 NatA ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]
Probab=49.70 E-value=6.1 Score=27.46 Aligned_cols=12 Identities=42% Similarity=0.789 Sum_probs=10.8
Q ss_pred eccCCCccceee
Q psy15017 75 YGQTGSGKTYTM 86 (97)
Q Consensus 75 yG~t~sGKt~T~ 86 (97)
+|.+|+|||.++
T Consensus 34 LG~NGAGKTT~L 45 (245)
T COG4555 34 LGENGAGKTTLL 45 (245)
T ss_pred EcCCCCCchhHH
Confidence 599999999876
No 374
>CHL00195 ycf46 Ycf46; Provisional
Probab=49.55 E-value=6.6 Score=30.09 Aligned_cols=17 Identities=35% Similarity=0.563 Sum_probs=13.8
Q ss_pred EEEEeeccCCCccceee
Q psy15017 70 ATILAYGQTGSGKTYTM 86 (97)
Q Consensus 70 ~~v~ayG~t~sGKt~T~ 86 (97)
-.|+-||..|+|||.+.
T Consensus 260 kGILL~GPpGTGKTllA 276 (489)
T CHL00195 260 RGLLLVGIQGTGKSLTA 276 (489)
T ss_pred ceEEEECCCCCcHHHHH
Confidence 45788999999998653
No 375
>PF11406 Tachystatin_A: Antimicrobial peptide tachystatin A; InterPro: IPR022717 Tachystatin A contains a cysteine-stabilised triple-stranded beta-sheet and shows features common to membrane-interactive peptides. Tachystatin A is thought to have an antimicrobial activity similar to defensins.Tachystatin A is also a chitin-binding peptide []. ; PDB: 1CIX_A.
Probab=49.46 E-value=3.7 Score=20.35 Aligned_cols=15 Identities=33% Similarity=0.817 Sum_probs=8.1
Q ss_pred HhCCCCEEEEeeccC
Q psy15017 64 SLEGYNATILAYGQT 78 (97)
Q Consensus 64 ~~~g~n~~v~ayG~t 78 (97)
-+.|+||.+-+||..
T Consensus 5 qlqgfncvvrsyglp 19 (44)
T PF11406_consen 5 QLQGFNCVVRSYGLP 19 (44)
T ss_dssp --TTEEE-S--TTS-
T ss_pred eecccceEEEccCCC
Confidence 468999999999864
No 376
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=49.27 E-value=6.9 Score=30.59 Aligned_cols=16 Identities=50% Similarity=0.677 Sum_probs=12.7
Q ss_pred EEEeeccCCCccceee
Q psy15017 71 TILAYGQTGSGKTYTM 86 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T~ 86 (97)
.+.-.|.+|+|||.|+
T Consensus 352 vIaLVGPtGvGKTTta 367 (559)
T PRK12727 352 VIALVGPTGAGKTTTI 367 (559)
T ss_pred EEEEECCCCCCHHHHH
Confidence 4444599999999986
No 377
>PRK06851 hypothetical protein; Provisional
Probab=49.12 E-value=10 Score=28.01 Aligned_cols=26 Identities=27% Similarity=0.468 Sum_probs=19.8
Q ss_pred HHHHhCCCCEEEEeeccCCCccceee
Q psy15017 61 VAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 61 v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
.+.++.+.+-.++--|..|+|||.+|
T Consensus 22 ~~~~~~~~~~~~il~G~pGtGKStl~ 47 (367)
T PRK06851 22 YDSIIDGANRIFILKGGPGTGKSTLM 47 (367)
T ss_pred hhhhccccceEEEEECCCCCCHHHHH
Confidence 34555666666777799999999887
No 378
>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=49.12 E-value=6.3 Score=25.88 Aligned_cols=14 Identities=36% Similarity=0.598 Sum_probs=11.4
Q ss_pred EeeccCCCccceee
Q psy15017 73 LAYGQTGSGKTYTM 86 (97)
Q Consensus 73 ~ayG~t~sGKt~T~ 86 (97)
.-.|.+|+|||..+
T Consensus 25 ~l~G~nG~GKSTLl 38 (176)
T cd03238 25 VVTGVSGSGKSTLV 38 (176)
T ss_pred EEECCCCCCHHHHH
Confidence 44699999999766
No 379
>PRK13830 conjugal transfer protein TrbE; Provisional
Probab=49.12 E-value=6.8 Score=31.81 Aligned_cols=18 Identities=39% Similarity=0.636 Sum_probs=15.0
Q ss_pred CEEEEeeccCCCccceee
Q psy15017 69 NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~T~ 86 (97)
++..+..|.||+|||..|
T Consensus 456 ~g~~~i~G~tGsGKS~l~ 473 (818)
T PRK13830 456 VGHTLIFGPTGSGKSTLL 473 (818)
T ss_pred CCEEEEECCCCCCHHHHH
Confidence 445778999999999877
No 380
>PRK13853 type IV secretion system protein VirB4; Provisional
Probab=49.07 E-value=7.5 Score=31.39 Aligned_cols=16 Identities=38% Similarity=0.574 Sum_probs=13.6
Q ss_pred EEEeeccCCCccceee
Q psy15017 71 TILAYGQTGSGKTYTM 86 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T~ 86 (97)
..+.+|.+|||||..+
T Consensus 428 ~~~I~G~tGsGKS~l~ 443 (789)
T PRK13853 428 MTAIFGPIGRGKTTLM 443 (789)
T ss_pred EEEEECCCCCCHHHHH
Confidence 4667899999999886
No 381
>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=48.88 E-value=12 Score=23.22 Aligned_cols=18 Identities=33% Similarity=0.451 Sum_probs=14.9
Q ss_pred CEEEEeeccCCCccceee
Q psy15017 69 NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~T~ 86 (97)
...+...|..|+|||..+
T Consensus 7 ~~~v~v~G~~~~GKSsli 24 (169)
T cd04114 7 LFKIVLIGNAGVGKTCLV 24 (169)
T ss_pred eeEEEEECCCCCCHHHHH
Confidence 456788999999998765
No 382
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=48.85 E-value=17 Score=31.11 Aligned_cols=25 Identities=28% Similarity=0.656 Sum_probs=19.7
Q ss_pred HHHHHHhCCCCEEEEeeccCCCcccee
Q psy15017 59 SLVAGSLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 59 p~v~~~~~g~n~~v~ayG~t~sGKt~T 85 (97)
.+|+.++.|.++ ++.-.||+|||-.
T Consensus 467 eaI~aiL~GrDV--LVimPTGSGKSLc 491 (1195)
T PLN03137 467 EIINATMSGYDV--FVLMPTGGGKSLT 491 (1195)
T ss_pred HHHHHHHcCCCE--EEEcCCCccHHHH
Confidence 467788999985 4567999999854
No 383
>TIGR01447 recD exodeoxyribonuclease V, alpha subunit. This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model.
Probab=48.57 E-value=6.6 Score=30.77 Aligned_cols=15 Identities=47% Similarity=0.618 Sum_probs=12.3
Q ss_pred EEeeccCCCccceee
Q psy15017 72 ILAYGQTGSGKTYTM 86 (97)
Q Consensus 72 v~ayG~t~sGKt~T~ 86 (97)
.+--|..|+|||+|+
T Consensus 163 ~vitGgpGTGKTt~v 177 (586)
T TIGR01447 163 SLITGGPGTGKTTTV 177 (586)
T ss_pred EEEEcCCCCCHHHHH
Confidence 344699999999985
No 384
>KOG1532|consensus
Probab=48.40 E-value=13 Score=27.03 Aligned_cols=20 Identities=45% Similarity=0.506 Sum_probs=16.6
Q ss_pred CCCEEEEeeccCCCccceee
Q psy15017 67 GYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 67 g~n~~v~ayG~t~sGKt~T~ 86 (97)
...+||++.|-.|||||.-|
T Consensus 17 ~~p~~ilVvGMAGSGKTTF~ 36 (366)
T KOG1532|consen 17 QRPVIILVVGMAGSGKTTFM 36 (366)
T ss_pred cCCcEEEEEecCCCCchhHH
Confidence 34679999999999998654
No 385
>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau. This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.
Probab=48.33 E-value=20 Score=25.44 Aligned_cols=36 Identities=28% Similarity=0.231 Sum_probs=22.1
Q ss_pred CcHHHHHHHHHHHHHHHHhCCC-CEEEEeeccCCCccceee
Q psy15017 47 DVQTTIYELCAASLVAGSLEGY-NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 47 ~~q~~v~~~~~~p~v~~~~~g~-n~~v~ayG~t~sGKt~T~ 86 (97)
..|+.+.+. +...+-.|. ...++-||..|+|||.+.
T Consensus 17 ig~~~~~~~----l~~~~~~~~~~~~~Ll~G~~G~GKt~~a 53 (355)
T TIGR02397 17 IGQEHIVQT----LKNAIKNGRIAHAYLFSGPRGTGKTSIA 53 (355)
T ss_pred cCcHHHHHH----HHHHHHcCCCCeEEEEECCCCCCHHHHH
Confidence 355555443 233334454 446778999999998654
No 386
>PRK05416 glmZ(sRNA)-inactivating NTPase; Provisional
Probab=48.18 E-value=6.5 Score=28.01 Aligned_cols=16 Identities=25% Similarity=0.638 Sum_probs=13.1
Q ss_pred EEEeeccCCCccceee
Q psy15017 71 TILAYGQTGSGKTYTM 86 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T~ 86 (97)
.|.-.|.+|||||..+
T Consensus 8 ~i~i~G~~GsGKtt~~ 23 (288)
T PRK05416 8 LVIVTGLSGAGKSVAL 23 (288)
T ss_pred EEEEECCCCCcHHHHH
Confidence 4667799999999765
No 387
>PRK11607 potG putrescine transporter ATP-binding subunit; Provisional
Probab=48.13 E-value=8.7 Score=28.29 Aligned_cols=15 Identities=27% Similarity=0.536 Sum_probs=12.0
Q ss_pred EEeeccCCCccceee
Q psy15017 72 ILAYGQTGSGKTYTM 86 (97)
Q Consensus 72 v~ayG~t~sGKt~T~ 86 (97)
+.-.|.+|+|||..|
T Consensus 48 ~~llGpsGsGKSTLL 62 (377)
T PRK11607 48 FALLGASGCGKSTLL 62 (377)
T ss_pred EEEECCCCCcHHHHH
Confidence 334799999999876
No 388
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=48.10 E-value=5.9 Score=26.69 Aligned_cols=20 Identities=15% Similarity=0.195 Sum_probs=16.6
Q ss_pred CEEEEeeccCCCccceeecC
Q psy15017 69 NATILAYGQTGSGKTYTMGT 88 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~T~~G 88 (97)
...|..|+.+|.|||+..+|
T Consensus 22 ~g~v~v~~g~GkGKtt~a~g 41 (191)
T PRK05986 22 KGLLIVHTGNGKGKSTAAFG 41 (191)
T ss_pred CCeEEEECCCCCChHHHHHH
Confidence 36788999999999987654
No 389
>PRK02362 ski2-like helicase; Provisional
Probab=48.04 E-value=16 Score=29.25 Aligned_cols=20 Identities=45% Similarity=0.381 Sum_probs=14.8
Q ss_pred HhCCCCEEEEeeccCCCcccee
Q psy15017 64 SLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 64 ~~~g~n~~v~ayG~t~sGKt~T 85 (97)
+++|.|.. .-..||||||..
T Consensus 36 ~~~g~nvl--v~APTGSGKTli 55 (737)
T PRK02362 36 LLDGKNLL--AAIPTASGKTLI 55 (737)
T ss_pred HhCCCcEE--EECCCcchHHHH
Confidence 56777644 457999999965
No 390
>COG4525 TauB ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=47.99 E-value=11 Score=26.17 Aligned_cols=16 Identities=31% Similarity=0.630 Sum_probs=13.1
Q ss_pred EEEeeccCCCccceee
Q psy15017 71 TILAYGQTGSGKTYTM 86 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T~ 86 (97)
.+.+.|.+|+|||.-+
T Consensus 33 ~vv~lGpSGcGKTTLL 48 (259)
T COG4525 33 LVVVLGPSGCGKTTLL 48 (259)
T ss_pred EEEEEcCCCccHHHHH
Confidence 4567899999999755
No 391
>COG0444 DppD ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]
Probab=47.82 E-value=5.1 Score=29.12 Aligned_cols=12 Identities=42% Similarity=0.714 Sum_probs=10.1
Q ss_pred eccCCCccceee
Q psy15017 75 YGQTGSGKTYTM 86 (97)
Q Consensus 75 yG~t~sGKt~T~ 86 (97)
-|.+|||||-|.
T Consensus 37 VGESGsGKS~~~ 48 (316)
T COG0444 37 VGESGSGKSVLA 48 (316)
T ss_pred EcCCCCCHHHHH
Confidence 499999998764
No 392
>TIGR01613 primase_Cterm phage/plasmid primase, P4 family, C-terminal domain. This model represents a clade within a larger family of proteins from viruses of bacteria and animals. Members of this family are found in phage and plasmids of bacteria and archaea only. The model describes a domain of about 300 residues, found generally toward the protein C-terminus.
Probab=47.76 E-value=10 Score=26.81 Aligned_cols=18 Identities=28% Similarity=0.497 Sum_probs=14.2
Q ss_pred CCEEEEeeccCCCcccee
Q psy15017 68 YNATILAYGQTGSGKTYT 85 (97)
Q Consensus 68 ~n~~v~ayG~t~sGKt~T 85 (97)
....++-||..|+||+..
T Consensus 75 ~~~~~~l~G~g~nGKStl 92 (304)
T TIGR01613 75 EQKLFFLYGNGGNGKSTF 92 (304)
T ss_pred ceEEEEEECCCCCcHHHH
Confidence 345688899999999754
No 393
>cd03273 ABC_SMC2_euk Eukaryotic SMC2 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 (fo
Probab=47.71 E-value=11 Score=25.77 Aligned_cols=13 Identities=38% Similarity=0.608 Sum_probs=10.7
Q ss_pred eeccCCCccceee
Q psy15017 74 AYGQTGSGKTYTM 86 (97)
Q Consensus 74 ayG~t~sGKt~T~ 86 (97)
-.|.+|||||-.+
T Consensus 30 IvG~NGsGKStll 42 (251)
T cd03273 30 ITGLNGSGKSNIL 42 (251)
T ss_pred EECCCCCCHHHHH
Confidence 4699999998654
No 394
>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=47.68 E-value=10 Score=23.73 Aligned_cols=18 Identities=33% Similarity=0.506 Sum_probs=14.4
Q ss_pred CEEEEeeccCCCccceee
Q psy15017 69 NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~T~ 86 (97)
...+...|..|+|||.-+
T Consensus 14 ~~~v~i~G~~g~GKStLl 31 (173)
T cd04155 14 EPRILILGLDNAGKTTIL 31 (173)
T ss_pred ccEEEEEccCCCCHHHHH
Confidence 455777899999998655
No 395
>PTZ00133 ADP-ribosylation factor; Provisional
Probab=47.47 E-value=19 Score=23.21 Aligned_cols=24 Identities=25% Similarity=0.314 Sum_probs=16.2
Q ss_pred HHhCCCCEEEEeeccCCCccceee
Q psy15017 63 GSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 63 ~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
.++.....-|...|..++|||--+
T Consensus 11 ~~~~~~~~kv~lvG~~~vGKTsli 34 (182)
T PTZ00133 11 SLFGKKEVRILMVGLDAAGKTTIL 34 (182)
T ss_pred HhcCCCccEEEEEcCCCCCHHHHH
Confidence 334434455777899999997544
No 396
>KOG2035|consensus
Probab=47.44 E-value=22 Score=26.00 Aligned_cols=34 Identities=32% Similarity=0.479 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHHh-CCCCEEEEeeccCCCcccee
Q psy15017 52 IYELCAASLVAGSL-EGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 52 v~~~~~~p~v~~~~-~g~n~~v~ayG~t~sGKt~T 85 (97)
+|..-..+....+. .+----++.||.+|+||-..
T Consensus 16 ~~~~e~~~~Lksl~~~~d~PHll~yGPSGaGKKTr 50 (351)
T KOG2035|consen 16 IYHEELANLLKSLSSTGDFPHLLVYGPSGAGKKTR 50 (351)
T ss_pred ccHHHHHHHHHHhcccCCCCeEEEECCCCCCchhh
Confidence 34444444444443 34344578999999999544
No 397
>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=47.44 E-value=7.1 Score=25.03 Aligned_cols=18 Identities=22% Similarity=0.344 Sum_probs=14.5
Q ss_pred CEEEEeeccCCCccceee
Q psy15017 69 NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~T~ 86 (97)
...|...|.+|+|||..+
T Consensus 18 ~~~i~ivG~~~~GKStli 35 (179)
T TIGR03598 18 GPEIAFAGRSNVGKSSLI 35 (179)
T ss_pred CCEEEEEcCCCCCHHHHH
Confidence 345677899999998776
No 398
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=47.28 E-value=19 Score=27.52 Aligned_cols=23 Identities=22% Similarity=0.206 Sum_probs=16.2
Q ss_pred HhCCCC-EEEEeeccCCCccceee
Q psy15017 64 SLEGYN-ATILAYGQTGSGKTYTM 86 (97)
Q Consensus 64 ~~~g~n-~~v~ayG~t~sGKt~T~ 86 (97)
+..|.- ..++-||..|+|||.+.
T Consensus 30 i~~~~l~~~~Lf~GPpGtGKTTlA 53 (472)
T PRK14962 30 LKKNSISHAYIFAGPRGTGKTTVA 53 (472)
T ss_pred HHcCCCCeEEEEECCCCCCHHHHH
Confidence 334443 45677899999998764
No 399
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=47.01 E-value=4.8 Score=33.34 Aligned_cols=14 Identities=50% Similarity=0.586 Sum_probs=11.7
Q ss_pred eeccCCCccceeec
Q psy15017 74 AYGQTGSGKTYTMG 87 (97)
Q Consensus 74 ayG~t~sGKt~T~~ 87 (97)
-.--+|||||.||+
T Consensus 278 IWHtqGSGKTlTm~ 291 (962)
T COG0610 278 IWHTQGSGKTLTMF 291 (962)
T ss_pred EEeecCCchHHHHH
Confidence 36789999999994
No 400
>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional
Probab=46.98 E-value=17 Score=27.77 Aligned_cols=42 Identities=14% Similarity=0.224 Sum_probs=24.5
Q ss_pred eccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCCCcccee
Q psy15017 38 TFDYVFDMADVQTTIYELCAASLVAGSLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 38 ~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T 85 (97)
.++.+.+.+..-..+++. ++. +...+..|+-+|.+|+||++.
T Consensus 185 ~~~~iig~s~~~~~~~~~-----i~~-~a~~~~pVlI~Ge~GtGK~~~ 226 (509)
T PRK05022 185 KEGEMIGQSPAMQQLKKE-----IEV-VAASDLNVLILGETGVGKELV 226 (509)
T ss_pred cCCceeecCHHHHHHHHH-----HHH-HhCCCCcEEEECCCCccHHHH
Confidence 455555544333333333 222 234566788899999999753
No 401
>PRK09452 potA putrescine/spermidine ABC transporter ATPase protein; Reviewed
Probab=46.74 E-value=9.4 Score=28.12 Aligned_cols=14 Identities=36% Similarity=0.603 Sum_probs=11.6
Q ss_pred EeeccCCCccceee
Q psy15017 73 LAYGQTGSGKTYTM 86 (97)
Q Consensus 73 ~ayG~t~sGKt~T~ 86 (97)
.-.|.+|||||..|
T Consensus 44 ~LlGpsGsGKSTLL 57 (375)
T PRK09452 44 TLLGPSGCGKTTVL 57 (375)
T ss_pred EEECCCCCcHHHHH
Confidence 34699999999876
No 402
>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]
Probab=46.72 E-value=10 Score=24.82 Aligned_cols=17 Identities=35% Similarity=0.542 Sum_probs=13.9
Q ss_pred EEEEeeccCCCccceee
Q psy15017 70 ATILAYGQTGSGKTYTM 86 (97)
Q Consensus 70 ~~v~ayG~t~sGKt~T~ 86 (97)
.-|..+|..|+|||.-|
T Consensus 6 ~kivv~G~~g~GKTtl~ 22 (219)
T COG1100 6 FKIVVLGDGGVGKTTLL 22 (219)
T ss_pred EEEEEEcCCCccHHHHH
Confidence 46788999999998654
No 403
>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX). A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.
Probab=46.71 E-value=9.9 Score=28.58 Aligned_cols=17 Identities=53% Similarity=0.700 Sum_probs=13.9
Q ss_pred EEEEeeccCCCccceee
Q psy15017 70 ATILAYGQTGSGKTYTM 86 (97)
Q Consensus 70 ~~v~ayG~t~sGKt~T~ 86 (97)
..++-+|.+|+|||...
T Consensus 117 ~~iLL~GP~GsGKT~lA 133 (413)
T TIGR00382 117 SNILLIGPTGSGKTLLA 133 (413)
T ss_pred ceEEEECCCCcCHHHHH
Confidence 46888999999998653
No 404
>PRK10876 recB exonuclease V subunit beta; Provisional
Probab=46.70 E-value=4.7 Score=34.10 Aligned_cols=13 Identities=38% Similarity=0.759 Sum_probs=10.7
Q ss_pred eccCCCccceeec
Q psy15017 75 YGQTGSGKTYTMG 87 (97)
Q Consensus 75 yG~t~sGKt~T~~ 87 (97)
=...||||||||-
T Consensus 23 EASAGTGKTyTIa 35 (1181)
T PRK10876 23 EASAGTGKTFTIA 35 (1181)
T ss_pred EeCCCCcHHHHHH
Confidence 3678999999973
No 405
>cd03272 ABC_SMC3_euk Eukaryotic SMC3 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 (fo
Probab=46.66 E-value=7.7 Score=26.16 Aligned_cols=13 Identities=38% Similarity=0.659 Sum_probs=11.1
Q ss_pred eeccCCCccceee
Q psy15017 74 AYGQTGSGKTYTM 86 (97)
Q Consensus 74 ayG~t~sGKt~T~ 86 (97)
-.|.+|+|||-.|
T Consensus 28 i~GpNGsGKStll 40 (243)
T cd03272 28 VVGRNGSGKSNFF 40 (243)
T ss_pred EECCCCCCHHHHH
Confidence 4699999999775
No 406
>PLN03186 DNA repair protein RAD51 homolog; Provisional
Probab=46.48 E-value=26 Score=25.60 Aligned_cols=30 Identities=27% Similarity=0.337 Sum_probs=21.0
Q ss_pred HHHHHHHHhCC-C--CEEEEeeccCCCccceee
Q psy15017 57 AASLVAGSLEG-Y--NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 57 ~~p~v~~~~~g-~--n~~v~ayG~t~sGKt~T~ 86 (97)
..+-++.++.| . ...+..||..|+|||.-.
T Consensus 108 G~~~LD~lL~GG~~~g~i~~i~G~~g~GKT~l~ 140 (342)
T PLN03186 108 GSRELDKILEGGIETGSITEIYGEFRTGKTQLC 140 (342)
T ss_pred CCHHHHHhhcCCCcCceEEEEECCCCCCccHHH
Confidence 33567777764 2 445668999999998643
No 407
>PRK07667 uridine kinase; Provisional
Probab=46.45 E-value=14 Score=24.25 Aligned_cols=18 Identities=28% Similarity=0.152 Sum_probs=13.2
Q ss_pred CCCEEEEeeccCCCccce
Q psy15017 67 GYNATILAYGQTGSGKTY 84 (97)
Q Consensus 67 g~n~~v~ayG~t~sGKt~ 84 (97)
+.-..|.--|.+|||||+
T Consensus 15 ~~~~iIgI~G~~gsGKSt 32 (193)
T PRK07667 15 ENRFILGIDGLSRSGKTT 32 (193)
T ss_pred CCCEEEEEECCCCCCHHH
Confidence 444455556999999987
No 408
>TIGR00609 recB exodeoxyribonuclease V, beta subunit. All proteins in this family for which functions are known are DNA-DNA helicases that are used as part of an exonuclease-helicase complex (made up of RecBCD homologs) that function to generate substrates for the initiation of recombination and recombinational repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=46.37 E-value=6.6 Score=32.90 Aligned_cols=14 Identities=36% Similarity=0.686 Sum_probs=11.4
Q ss_pred eeccCCCccceeec
Q psy15017 74 AYGQTGSGKTYTMG 87 (97)
Q Consensus 74 ayG~t~sGKt~T~~ 87 (97)
.=...|+||||||.
T Consensus 14 ieAsAGtGKT~ti~ 27 (1087)
T TIGR00609 14 IEASAGTGKTFTIA 27 (1087)
T ss_pred EEECCCCCHHHHHH
Confidence 34688999999984
No 409
>PLN02165 adenylate isopentenyltransferase
Probab=46.35 E-value=11 Score=27.56 Aligned_cols=16 Identities=38% Similarity=0.592 Sum_probs=12.3
Q ss_pred EEEeeccCCCccceee
Q psy15017 71 TILAYGQTGSGKTYTM 86 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T~ 86 (97)
.++-.|.||||||...
T Consensus 45 iivIiGPTGSGKStLA 60 (334)
T PLN02165 45 VVVIMGATGSGKSRLS 60 (334)
T ss_pred EEEEECCCCCcHHHHH
Confidence 4556799999998643
No 410
>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=46.26 E-value=7.4 Score=30.35 Aligned_cols=16 Identities=50% Similarity=0.748 Sum_probs=12.7
Q ss_pred EEEeeccCCCccceee
Q psy15017 71 TILAYGQTGSGKTYTM 86 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T~ 86 (97)
-++.+|.||||||..|
T Consensus 178 h~li~G~tGsGKs~~i 193 (566)
T TIGR02759 178 HILIHGTTGSGKSVAI 193 (566)
T ss_pred ceEEEcCCCCCHHHHH
Confidence 3567999999998644
No 411
>cd03239 ABC_SMC_head The structural maintenance of chromosomes (SMC) proteins are essential for successful chromosome transmission during replication and segregation of the genome in all organisms. SMCs are generally present as single proteins in bacteria, and as at least six distinct proteins in eukaryotes. The proteins range in size from approximately 110 to 170 kDa, and each has five distinct domains: amino- and carboxy-terminal globular domains, which contain sequences characteristic of ATPases, two coiled-coil regions separating the terminal domains , and a central flexible hinge. SMC proteins function together with other proteins in a range of chromosomal transactions, including chromosome condensation, sister-chromatid cohesion, recombination, DNA repair, and epigenetic silencing of gene expression.
Probab=46.16 E-value=10 Score=24.81 Aligned_cols=14 Identities=36% Similarity=0.560 Sum_probs=10.9
Q ss_pred EeeccCCCccceee
Q psy15017 73 LAYGQTGSGKTYTM 86 (97)
Q Consensus 73 ~ayG~t~sGKt~T~ 86 (97)
+-.|.+|||||--|
T Consensus 26 ~i~G~NGsGKSnil 39 (178)
T cd03239 26 AIVGPNGSGKSNIV 39 (178)
T ss_pred EEECCCCCCHHHHH
Confidence 35799999997544
No 412
>COG3596 Predicted GTPase [General function prediction only]
Probab=46.14 E-value=18 Score=26.05 Aligned_cols=23 Identities=30% Similarity=0.421 Sum_probs=17.5
Q ss_pred HhCCCCEEEEeeccCCCccceee
Q psy15017 64 SLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 64 ~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
+.+-....++-.|.||+||+.++
T Consensus 34 l~~~~pvnvLi~G~TG~GKSSli 56 (296)
T COG3596 34 LTEKEPVNVLLMGATGAGKSSLI 56 (296)
T ss_pred hcccCceeEEEecCCCCcHHHHH
Confidence 34445566667899999999876
No 413
>PRK14701 reverse gyrase; Provisional
Probab=45.78 E-value=21 Score=31.52 Aligned_cols=24 Identities=25% Similarity=0.310 Sum_probs=19.0
Q ss_pred HHHHHHhCCCCEEEEeeccCCCccce
Q psy15017 59 SLVAGSLEGYNATILAYGQTGSGKTY 84 (97)
Q Consensus 59 p~v~~~~~g~n~~v~ayG~t~sGKt~ 84 (97)
..+..++.|.+.. +.++||||||.
T Consensus 86 ~~i~~il~G~d~l--i~APTGsGKTl 109 (1638)
T PRK14701 86 TWAKRILRGKSFS--IVAPTGMGKST 109 (1638)
T ss_pred HHHHHHHcCCCEE--EEEcCCCCHHH
Confidence 3566788898754 57899999996
No 414
>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=45.44 E-value=9.7 Score=29.45 Aligned_cols=16 Identities=44% Similarity=0.767 Sum_probs=12.9
Q ss_pred EEEeeccCCCccceee
Q psy15017 71 TILAYGQTGSGKTYTM 86 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T~ 86 (97)
.++-||..|+|||...
T Consensus 218 GILLyGPPGTGKT~LA 233 (512)
T TIGR03689 218 GVLLYGPPGCGKTLIA 233 (512)
T ss_pred ceEEECCCCCcHHHHH
Confidence 3667999999999643
No 415
>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=45.30 E-value=12 Score=25.63 Aligned_cols=15 Identities=40% Similarity=0.556 Sum_probs=11.6
Q ss_pred EEeeccCCCccceee
Q psy15017 72 ILAYGQTGSGKTYTM 86 (97)
Q Consensus 72 v~ayG~t~sGKt~T~ 86 (97)
..-+|.+|||||-.|
T Consensus 25 ~~i~G~NGsGKStll 39 (247)
T cd03275 25 TCIIGPNGSGKSNLM 39 (247)
T ss_pred EEEECCCCCCHHHHH
Confidence 345799999998654
No 416
>PLN02748 tRNA dimethylallyltransferase
Probab=45.11 E-value=14 Score=28.34 Aligned_cols=18 Identities=39% Similarity=0.658 Sum_probs=13.9
Q ss_pred CCCEEEEeeccCCCccce
Q psy15017 67 GYNATILAYGQTGSGKTY 84 (97)
Q Consensus 67 g~n~~v~ayG~t~sGKt~ 84 (97)
+..-.|+..|.||||||.
T Consensus 20 ~~~~~i~i~GptgsGKs~ 37 (468)
T PLN02748 20 GKAKVVVVMGPTGSGKSK 37 (468)
T ss_pred CCCCEEEEECCCCCCHHH
Confidence 444467778999999985
No 417
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=45.07 E-value=11 Score=28.25 Aligned_cols=35 Identities=34% Similarity=0.504 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHHH-HhC--CC--CEEEEeeccCCCccc
Q psy15017 49 QTTIYELCAASLVAG-SLE--GY--NATILAYGQTGSGKT 83 (97)
Q Consensus 49 q~~v~~~~~~p~v~~-~~~--g~--n~~v~ayG~t~sGKt 83 (97)
-+++.+.+..|+.+. +|+ |. .--|+=||..|+|||
T Consensus 160 i~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKT 199 (406)
T COG1222 160 IQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKT 199 (406)
T ss_pred HHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHH
Confidence 377777777777665 442 44 234678999999997
No 418
>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=44.90 E-value=8.3 Score=26.80 Aligned_cols=29 Identities=28% Similarity=0.349 Sum_probs=20.2
Q ss_pred HHHHHHHHhCC-C--CEEEEeeccCCCcccee
Q psy15017 57 AASLVAGSLEG-Y--NATILAYGQTGSGKTYT 85 (97)
Q Consensus 57 ~~p~v~~~~~g-~--n~~v~ayG~t~sGKt~T 85 (97)
..+.++.+|.| . ....=-||.+|||||.-
T Consensus 23 g~~~lD~~L~GGi~~g~itEi~G~~gsGKTql 54 (256)
T PF08423_consen 23 GCKSLDELLGGGIPTGSITEIVGESGSGKTQL 54 (256)
T ss_dssp SSHHHHHHTTSSEETTSEEEEEESTTSSHHHH
T ss_pred CCHHHHHhhCCCCCCCcEEEEEEecccccchH
Confidence 34678888865 2 33344689999999864
No 419
>KOG0162|consensus
Probab=44.54 E-value=29 Score=28.57 Aligned_cols=34 Identities=26% Similarity=0.457 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHHHh-CCCCEEEEeeccCCCccce
Q psy15017 50 TTIYELCAASLVAGSL-EGYNATILAYGQTGSGKTY 84 (97)
Q Consensus 50 ~~v~~~~~~p~v~~~~-~g~n~~v~ayG~t~sGKt~ 84 (97)
..||. ++..|...++ +..|.||+--|.+|.|||-
T Consensus 85 PHiyA-ladnmY~nM~~~~EnQCVIISGESGAGKT~ 119 (1106)
T KOG0162|consen 85 PHIYA-LADNMYRNMKIDNENQCVIISGESGAGKTV 119 (1106)
T ss_pred chhhh-hHHHHHHHhhhccccceEEEecCCCCCchH
Confidence 34453 3445555554 6889999999999999973
No 420
>PF13337 Lon_2: Putative ATP-dependent Lon protease
Probab=44.49 E-value=29 Score=26.61 Aligned_cols=18 Identities=33% Similarity=0.757 Sum_probs=14.2
Q ss_pred CEEEEeeccCCCccceee
Q psy15017 69 NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~T~ 86 (97)
|-.++-.|..|+||||.-
T Consensus 208 N~NliELgPrGTGKS~vy 225 (457)
T PF13337_consen 208 NYNLIELGPRGTGKSYVY 225 (457)
T ss_pred ccceEEEcCCCCCceeeh
Confidence 334567899999999974
No 421
>KOG0344|consensus
Probab=44.32 E-value=17 Score=28.63 Aligned_cols=25 Identities=40% Similarity=0.490 Sum_probs=17.9
Q ss_pred HHHHHHhCCCCEEEEeeccCCCcccee
Q psy15017 59 SLVAGSLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 59 p~v~~~~~g~n~~v~ayG~t~sGKt~T 85 (97)
+.+..++++.+ ++|.+.||||||+.
T Consensus 165 ~aipvfl~~r~--~lAcapTGsgKtla 189 (593)
T KOG0344|consen 165 QAIPVFLEKRD--VLACAPTGSGKTLA 189 (593)
T ss_pred hhhhhhhcccc--eEEeccCCCcchhh
Confidence 34555666655 57999999999753
No 422
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=44.29 E-value=18 Score=29.36 Aligned_cols=17 Identities=35% Similarity=0.421 Sum_probs=13.2
Q ss_pred EEeeccCCCccceeecC
Q psy15017 72 ILAYGQTGSGKTYTMGT 88 (97)
Q Consensus 72 v~ayG~t~sGKt~T~~G 88 (97)
++=+|.+|+|||+...+
T Consensus 210 ~LLvGppGvGKT~lae~ 226 (758)
T PRK11034 210 PLLVGESGVGKTAIAEG 226 (758)
T ss_pred eEEECCCCCCHHHHHHH
Confidence 34499999999987643
No 423
>cd03278 ABC_SMC_barmotin Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. 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, w
Probab=44.27 E-value=12 Score=24.78 Aligned_cols=13 Identities=38% Similarity=0.657 Sum_probs=11.1
Q ss_pred eeccCCCccceee
Q psy15017 74 AYGQTGSGKTYTM 86 (97)
Q Consensus 74 ayG~t~sGKt~T~ 86 (97)
-.|.+|+|||-.+
T Consensus 27 i~G~nGsGKStll 39 (197)
T cd03278 27 IVGPNGSGKSNII 39 (197)
T ss_pred EECCCCCCHHHHH
Confidence 5799999998765
No 424
>KOG1800|consensus
Probab=44.25 E-value=22 Score=27.04 Aligned_cols=21 Identities=33% Similarity=0.657 Sum_probs=17.5
Q ss_pred HHHHHhCCCCEEEEeeccCCC
Q psy15017 60 LVAGSLEGYNATILAYGQTGS 80 (97)
Q Consensus 60 ~v~~~~~g~n~~v~ayG~t~s 80 (97)
.++.+.++|.+.|+|||..+-
T Consensus 101 sl~eL~~~ydavvLaYGa~~d 121 (468)
T KOG1800|consen 101 SLKELTDNYDAVVLAYGADGD 121 (468)
T ss_pred cHHHHhhcccEEEEEecCCCC
Confidence 345678999999999999874
No 425
>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=44.14 E-value=10 Score=25.00 Aligned_cols=16 Identities=25% Similarity=0.353 Sum_probs=12.7
Q ss_pred EEEeeccCCCccceee
Q psy15017 71 TILAYGQTGSGKTYTM 86 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T~ 86 (97)
.+.-.|.+|+|||..|
T Consensus 31 ~~~l~G~Ng~GKStll 46 (202)
T cd03243 31 LLLITGPNMGGKSTYL 46 (202)
T ss_pred EEEEECCCCCccHHHH
Confidence 4556799999999765
No 426
>PRK13880 conjugal transfer coupling protein TraG; Provisional
Probab=44.10 E-value=16 Score=28.88 Aligned_cols=19 Identities=32% Similarity=0.427 Sum_probs=15.4
Q ss_pred CEEEEeeccCCCccceeec
Q psy15017 69 NATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~T~~ 87 (97)
+.-++.+|.||||||..+.
T Consensus 175 ~~HvlviapTgSGKgvg~V 193 (636)
T PRK13880 175 PEHVLTYAPTRSGKGVGLV 193 (636)
T ss_pred CceEEEEecCCCCCceEEE
Confidence 4457889999999998763
No 427
>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=44.05 E-value=14 Score=24.71 Aligned_cols=15 Identities=40% Similarity=0.592 Sum_probs=11.8
Q ss_pred EEeeccCCCccceee
Q psy15017 72 ILAYGQTGSGKTYTM 86 (97)
Q Consensus 72 v~ayG~t~sGKt~T~ 86 (97)
+.-.|.+|||||.-|
T Consensus 29 ~~l~G~nGsGKSTLl 43 (232)
T cd03218 29 VGLLGPNGAGKTTTF 43 (232)
T ss_pred EEEECCCCCCHHHHH
Confidence 445799999999765
No 428
>PRK14738 gmk guanylate kinase; Provisional
Probab=43.85 E-value=17 Score=24.19 Aligned_cols=18 Identities=22% Similarity=0.421 Sum_probs=13.2
Q ss_pred CEEEEeeccCCCccceee
Q psy15017 69 NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~T~ 86 (97)
...+.-.|.+|+|||..+
T Consensus 13 ~~~ivi~GpsG~GK~tl~ 30 (206)
T PRK14738 13 PLLVVISGPSGVGKDAVL 30 (206)
T ss_pred CeEEEEECcCCCCHHHHH
Confidence 344556799999998754
No 429
>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. 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=43.81 E-value=9.5 Score=25.36 Aligned_cols=14 Identities=29% Similarity=0.525 Sum_probs=11.4
Q ss_pred EeeccCCCccceee
Q psy15017 73 LAYGQTGSGKTYTM 86 (97)
Q Consensus 73 ~ayG~t~sGKt~T~ 86 (97)
.-.|.+|||||..+
T Consensus 34 ~i~G~nGsGKSTLl 47 (220)
T cd03293 34 ALVGPSGCGKSTLL 47 (220)
T ss_pred EEECCCCCCHHHHH
Confidence 34699999998765
No 430
>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=43.57 E-value=18 Score=23.38 Aligned_cols=17 Identities=29% Similarity=0.450 Sum_probs=12.8
Q ss_pred CEEEEeeccCCCcccee
Q psy15017 69 NATILAYGQTGSGKTYT 85 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~T 85 (97)
+..++-.|.+|+|||.+
T Consensus 14 g~gvLi~G~sG~GKStl 30 (149)
T cd01918 14 GIGVLITGPSGIGKSEL 30 (149)
T ss_pred CEEEEEEcCCCCCHHHH
Confidence 34566779999999843
No 431
>PRK11823 DNA repair protein RadA; Provisional
Probab=43.52 E-value=26 Score=26.43 Aligned_cols=30 Identities=23% Similarity=0.376 Sum_probs=22.2
Q ss_pred HHHHHHHHhCC-C--CEEEEeeccCCCccceee
Q psy15017 57 AASLVAGSLEG-Y--NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 57 ~~p~v~~~~~g-~--n~~v~ayG~t~sGKt~T~ 86 (97)
..+-++.++.| . ...++-+|..|+|||.-+
T Consensus 65 Gi~~LD~~LgGGi~~Gs~~lI~G~pG~GKTtL~ 97 (446)
T PRK11823 65 GIGELDRVLGGGLVPGSVVLIGGDPGIGKSTLL 97 (446)
T ss_pred CcHHHHHHhcCCccCCEEEEEECCCCCCHHHHH
Confidence 34567788863 3 567788999999998744
No 432
>cd01919 PEPCK 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).
Probab=43.51 E-value=16 Score=28.37 Aligned_cols=17 Identities=29% Similarity=0.515 Sum_probs=13.7
Q ss_pred EEEeeccCCCccceeec
Q psy15017 71 TILAYGQTGSGKTYTMG 87 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T~~ 87 (97)
.+..+|.+|+|||.+-.
T Consensus 219 ~~~~~GlSGtGKTTLa~ 235 (515)
T cd01919 219 VLVFFGLSGTGKTTLSM 235 (515)
T ss_pred EEEEEecccCCCccccc
Confidence 66778999999986654
No 433
>PF02702 KdpD: Osmosensitive K+ channel His kinase sensor domain; InterPro: IPR003852 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Signal transducing histidine kinases are the key elements in two-component signal transduction systems, which control complex processes such as the initiation of development in microorganisms [, ]. Examples of histidine kinases are EnvZ, which plays a central role in osmoregulation [], and CheA, which plays a central role in the chemotaxis system []. Histidine kinases usually have an N-terminal ligand-binding domain and a C-terminal kinase domain, but other domains may also be present. The kinase domain is responsible for the autophosphorylation of the histidine with ATP, the phosphotransfer from the kinase to an aspartate of the response regulator, and (with bifunctional enzymes) the phosphotransfer from aspartyl phosphate back to ADP or to water []. The kinase core has a unique fold, distinct from that of the Ser/Thr/Tyr kinase superfamily. HKs can be roughly divided into two classes: orthodox and hybrid kinases [, ]. Most orthodox HKs, typified by the Escherichia coli EnvZ protein, function as periplasmic membrane receptors and have a signal peptide and transmembrane segment(s) that separate the protein into a periplasmic N-terminal sensing domain and a highly conserved cytoplasmic C-terminal kinase core. Members of this family, however, have an integral membrane sensor domain. Not all orthodox kinases are membrane bound, e.g., the nitrogen regulatory kinase NtrB (GlnL) is a soluble cytoplasmic HK []. Hybrid kinases contain multiple phosphodonor and phosphoacceptor sites and use multi-step phospho-relay schemes instead of promoting a single phosphoryl transfer. In addition to the sensor domain and kinase core, they contain a CheY-like receiver domain and a His-containing phosphotransfer (HPt) domain. This entry represents the N-terminal domain found in KdpD sensor kinase proteins, which regulate the kdpFABC operon responsible for potassium transport []. The N-terminal domain forms part of the cytoplasmic region of the protein, which may be the sensor domain responsible for sensing turgor pressure [].; GO: 0000155 two-component sensor activity, 0004673 protein histidine kinase activity, 0000160 two-component signal transduction system (phosphorelay), 0016020 membrane; PDB: 2R8R_B.
Probab=43.51 E-value=7.8 Score=26.57 Aligned_cols=16 Identities=44% Similarity=0.571 Sum_probs=12.2
Q ss_pred EEeeccCCCccceeec
Q psy15017 72 ILAYGQTGSGKTYTMG 87 (97)
Q Consensus 72 v~ayG~t~sGKt~T~~ 87 (97)
||-=-..|.||||.|+
T Consensus 8 IflG~apGVGKTy~ML 23 (211)
T PF02702_consen 8 IFLGAAPGVGKTYAML 23 (211)
T ss_dssp EEEESSTTSSHHHHHH
T ss_pred EEEecCCCCCHHHHHH
Confidence 4444578999999995
No 434
>KOG1384|consensus
Probab=43.41 E-value=15 Score=26.99 Aligned_cols=15 Identities=33% Similarity=0.658 Sum_probs=12.3
Q ss_pred EEEEeeccCCCccce
Q psy15017 70 ATILAYGQTGSGKTY 84 (97)
Q Consensus 70 ~~v~ayG~t~sGKt~ 84 (97)
-.++..|.|||||+-
T Consensus 8 KVvvI~G~TGsGKSr 22 (348)
T KOG1384|consen 8 KVVVIMGATGAGKSR 22 (348)
T ss_pred eEEEEecCCCCChhh
Confidence 357788999999974
No 435
>COG4152 ABC-type uncharacterized transport system, ATPase component [General function prediction only]
Probab=43.34 E-value=9.8 Score=27.22 Aligned_cols=12 Identities=50% Similarity=0.808 Sum_probs=10.5
Q ss_pred eccCCCccceee
Q psy15017 75 YGQTGSGKTYTM 86 (97)
Q Consensus 75 yG~t~sGKt~T~ 86 (97)
.|++|.|||.|+
T Consensus 34 lG~NGAGKTTtf 45 (300)
T COG4152 34 LGPNGAGKTTTF 45 (300)
T ss_pred ecCCCCCccchH
Confidence 499999999886
No 436
>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=43.31 E-value=14 Score=24.47 Aligned_cols=17 Identities=24% Similarity=0.507 Sum_probs=12.8
Q ss_pred EEEEeeccCCCccceee
Q psy15017 70 ATILAYGQTGSGKTYTM 86 (97)
Q Consensus 70 ~~v~ayG~t~sGKt~T~ 86 (97)
-.+.-.|.+|||||.-+
T Consensus 24 e~~~i~G~nGsGKSTLl 40 (214)
T cd03297 24 EVTGIFGASGAGKSTLL 40 (214)
T ss_pred eeEEEECCCCCCHHHHH
Confidence 34556799999998655
No 437
>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=43.21 E-value=9.9 Score=25.28 Aligned_cols=15 Identities=40% Similarity=0.565 Sum_probs=11.7
Q ss_pred EEeeccCCCccceee
Q psy15017 72 ILAYGQTGSGKTYTM 86 (97)
Q Consensus 72 v~ayG~t~sGKt~T~ 86 (97)
+.-.|.+|||||..+
T Consensus 29 ~~i~G~nGsGKSTLl 43 (220)
T cd03265 29 FGLLGPNGAGKTTTI 43 (220)
T ss_pred EEEECCCCCCHHHHH
Confidence 344699999999765
No 438
>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]
Probab=43.07 E-value=8.8 Score=26.43 Aligned_cols=10 Identities=60% Similarity=0.803 Sum_probs=8.4
Q ss_pred eccCCCccce
Q psy15017 75 YGQTGSGKTY 84 (97)
Q Consensus 75 yG~t~sGKt~ 84 (97)
-|.+|||||.
T Consensus 14 aG~SgSGKTT 23 (218)
T COG0572 14 AGGSGSGKTT 23 (218)
T ss_pred eCCCCCCHHH
Confidence 4999999974
No 439
>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=42.90 E-value=10 Score=25.44 Aligned_cols=15 Identities=27% Similarity=0.512 Sum_probs=11.6
Q ss_pred EEeeccCCCccceee
Q psy15017 72 ILAYGQTGSGKTYTM 86 (97)
Q Consensus 72 v~ayG~t~sGKt~T~ 86 (97)
+.-.|.+|||||..+
T Consensus 34 ~~l~G~nGsGKSTLl 48 (233)
T cd03258 34 FGIIGRSGAGKSTLI 48 (233)
T ss_pred EEEECCCCCCHHHHH
Confidence 344699999999764
No 440
>COG0410 LivF ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]
Probab=42.84 E-value=10 Score=26.47 Aligned_cols=15 Identities=33% Similarity=0.643 Sum_probs=12.3
Q ss_pred EEeeccCCCccceee
Q psy15017 72 ILAYGQTGSGKTYTM 86 (97)
Q Consensus 72 v~ayG~t~sGKt~T~ 86 (97)
+.-.|.+|+|||.+|
T Consensus 32 v~llG~NGaGKTTlL 46 (237)
T COG0410 32 VALLGRNGAGKTTLL 46 (237)
T ss_pred EEEECCCCCCHHHHH
Confidence 345799999999887
No 441
>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=42.84 E-value=14 Score=24.94 Aligned_cols=16 Identities=31% Similarity=0.495 Sum_probs=12.6
Q ss_pred EEEeeccCCCccceee
Q psy15017 71 TILAYGQTGSGKTYTM 86 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T~ 86 (97)
++--.|.+|||||..+
T Consensus 23 ~~~l~G~sGsGKSTL~ 38 (226)
T cd03270 23 LVVITGVSGSGKSSLA 38 (226)
T ss_pred EEEEEcCCCCCHHHHH
Confidence 4455799999999875
No 442
>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=42.72 E-value=10 Score=24.93 Aligned_cols=15 Identities=40% Similarity=0.543 Sum_probs=11.7
Q ss_pred EEeeccCCCccceee
Q psy15017 72 ILAYGQTGSGKTYTM 86 (97)
Q Consensus 72 v~ayG~t~sGKt~T~ 86 (97)
+.-.|.+|||||..|
T Consensus 29 ~~i~G~nGsGKSTLl 43 (205)
T cd03226 29 IALTGKNGAGKTTLA 43 (205)
T ss_pred EEEECCCCCCHHHHH
Confidence 344699999999765
No 443
>PRK15455 PrkA family serine protein kinase; Provisional
Probab=42.63 E-value=55 Score=26.21 Aligned_cols=41 Identities=17% Similarity=0.189 Sum_probs=26.8
Q ss_pred ecCCCcHHHHHHHHHHHHHHHHh--CCCCEEEEeeccCCCccc
Q psy15017 43 FDMADVQTTIYELCAASLVAGSL--EGYNATILAYGQTGSGKT 83 (97)
Q Consensus 43 f~~~~~q~~v~~~~~~p~v~~~~--~g~n~~v~ayG~t~sGKt 83 (97)
|.....++++-+.++..+...+. +.....++=.|..|+|||
T Consensus 75 F~d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKS 117 (644)
T PRK15455 75 FEEFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKS 117 (644)
T ss_pred hhcccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCch
Confidence 33445677777777766544433 444555666699999997
No 444
>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=42.60 E-value=20 Score=25.42 Aligned_cols=28 Identities=21% Similarity=0.368 Sum_probs=17.2
Q ss_pred HHHHHHh--CCCCEEEEeeccCCCccceee
Q psy15017 59 SLVAGSL--EGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 59 p~v~~~~--~g~n~~v~ayG~t~sGKt~T~ 86 (97)
.+++.+. .+..-.+.-.|..|+|||.++
T Consensus 22 ~~~~~~~~~~~~~~~i~i~G~~G~GKttl~ 51 (300)
T TIGR00750 22 QLLDRIMPYTGNAHRVGITGTPGAGKSTLL 51 (300)
T ss_pred HHHHhCCcccCCceEEEEECCCCCCHHHHH
Confidence 3444443 233344444599999999865
No 445
>cd03271 ABC_UvrA_II The excision repair protein UvrA domain II; 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=42.55 E-value=16 Score=25.66 Aligned_cols=15 Identities=33% Similarity=0.492 Sum_probs=11.5
Q ss_pred EEeeccCCCccceee
Q psy15017 72 ILAYGQTGSGKTYTM 86 (97)
Q Consensus 72 v~ayG~t~sGKt~T~ 86 (97)
+..-|.+|||||.-+
T Consensus 24 ~~vtGvSGsGKStL~ 38 (261)
T cd03271 24 TCVTGVSGSGKSSLI 38 (261)
T ss_pred EEEECCCCCchHHHH
Confidence 345699999998655
No 446
>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family. Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.
Probab=42.51 E-value=31 Score=28.35 Aligned_cols=30 Identities=27% Similarity=0.350 Sum_probs=0.0
Q ss_pred HHHHHHHHHHhCCCC------EEEEeeccCCCccce
Q psy15017 55 LCAASLVAGSLEGYN------ATILAYGQTGSGKTY 84 (97)
Q Consensus 55 ~~~~p~v~~~~~g~n------~~v~ayG~t~sGKt~ 84 (97)
..+...+.....|.+ ++++-.|.+|+|||+
T Consensus 576 ~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~ 611 (852)
T TIGR03345 576 EAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTE 611 (852)
T ss_pred HHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHH
No 447
>TIGR00073 hypB hydrogenase accessory protein HypB. HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.
Probab=42.51 E-value=10 Score=25.15 Aligned_cols=15 Identities=33% Similarity=0.410 Sum_probs=11.5
Q ss_pred EEeeccCCCccceee
Q psy15017 72 ILAYGQTGSGKTYTM 86 (97)
Q Consensus 72 v~ayG~t~sGKt~T~ 86 (97)
+.--|..|||||..+
T Consensus 25 i~~~G~~gsGKTTli 39 (207)
T TIGR00073 25 LNFMSSPGSGKTTLI 39 (207)
T ss_pred EEEECCCCCCHHHHH
Confidence 444599999999755
No 448
>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=42.47 E-value=15 Score=24.19 Aligned_cols=14 Identities=29% Similarity=0.624 Sum_probs=11.0
Q ss_pred EeeccCCCccceee
Q psy15017 73 LAYGQTGSGKTYTM 86 (97)
Q Consensus 73 ~ayG~t~sGKt~T~ 86 (97)
.-.|.+|||||.-+
T Consensus 31 ~i~G~nGsGKSTLl 44 (214)
T cd03292 31 FLVGPSGAGKSTLL 44 (214)
T ss_pred EEECCCCCCHHHHH
Confidence 34699999998654
No 449
>PRK00254 ski2-like helicase; Provisional
Probab=42.33 E-value=21 Score=28.41 Aligned_cols=20 Identities=45% Similarity=0.416 Sum_probs=15.2
Q ss_pred HhCCCCEEEEeeccCCCcccee
Q psy15017 64 SLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 64 ~~~g~n~~v~ayG~t~sGKt~T 85 (97)
+++|.|. +....||||||..
T Consensus 36 ~~~g~nv--lv~apTGsGKT~~ 55 (720)
T PRK00254 36 VLEGKNL--VLAIPTASGKTLV 55 (720)
T ss_pred HhCCCcE--EEECCCCcHHHHH
Confidence 5678775 4467999999964
No 450
>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=42.32 E-value=10 Score=24.57 Aligned_cols=14 Identities=29% Similarity=0.551 Sum_probs=11.2
Q ss_pred EeeccCCCccceee
Q psy15017 73 LAYGQTGSGKTYTM 86 (97)
Q Consensus 73 ~ayG~t~sGKt~T~ 86 (97)
.-.|.+|||||..+
T Consensus 22 ~i~G~nGsGKSTLl 35 (190)
T TIGR01166 22 ALLGANGAGKSTLL 35 (190)
T ss_pred EEECCCCCCHHHHH
Confidence 34699999999765
No 451
>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=42.31 E-value=15 Score=24.30 Aligned_cols=15 Identities=33% Similarity=0.614 Sum_probs=11.6
Q ss_pred EEeeccCCCccceee
Q psy15017 72 ILAYGQTGSGKTYTM 86 (97)
Q Consensus 72 v~ayG~t~sGKt~T~ 86 (97)
+.-.|.+|+|||..+
T Consensus 33 ~~l~G~nGsGKSTLl 47 (218)
T cd03255 33 VAIVGPSGSGKSTLL 47 (218)
T ss_pred EEEEcCCCCCHHHHH
Confidence 344699999998655
No 452
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=42.25 E-value=18 Score=31.98 Aligned_cols=28 Identities=25% Similarity=0.248 Sum_probs=21.3
Q ss_pred HHHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 59 SLVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 59 p~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
..+..++...+..++.-|..|+|||++|
T Consensus 842 ~Av~~iLts~dr~~~IqG~AGTGKTT~l 869 (1623)
T PRK14712 842 AATRMILETSDRFTVVQGYAGVGKTTQF 869 (1623)
T ss_pred HHHHHHHhCCCceEEEEeCCCCCHHHHH
Confidence 3566677666656667799999999985
No 453
>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=42.02 E-value=11 Score=24.75 Aligned_cols=15 Identities=33% Similarity=0.581 Sum_probs=11.7
Q ss_pred EEeeccCCCccceee
Q psy15017 72 ILAYGQTGSGKTYTM 86 (97)
Q Consensus 72 v~ayG~t~sGKt~T~ 86 (97)
+.-.|.+|+|||..+
T Consensus 27 ~~i~G~nGsGKSTLl 41 (206)
T TIGR03608 27 YAIIGESGSGKSTLL 41 (206)
T ss_pred EEEECCCCCCHHHHH
Confidence 344699999999765
No 454
>PRK04220 2-phosphoglycerate kinase; Provisional
Probab=41.91 E-value=31 Score=24.89 Aligned_cols=18 Identities=28% Similarity=0.314 Sum_probs=15.1
Q ss_pred CCCEEEEeeccCCCccce
Q psy15017 67 GYNATILAYGQTGSGKTY 84 (97)
Q Consensus 67 g~n~~v~ayG~t~sGKt~ 84 (97)
.....|+..|.+|||||.
T Consensus 90 ~~p~iIlI~G~sgsGKSt 107 (301)
T PRK04220 90 KEPIIILIGGASGVGTST 107 (301)
T ss_pred CCCEEEEEECCCCCCHHH
Confidence 356788899999999985
No 455
>PF00519 PPV_E1_C: Papillomavirus helicase; InterPro: IPR001177 Papillomaviruses are a large family of DNA tumour viruses which give rise to warts in their host species. The helicase E1 protein is an ATP-dependent DNA helicase required for initiation of viral DNA replication []. It forms a complex with the viral E2 protein, which is a site-specific DNA-binding transcriptional activator. The E1-E2 complex binds to the replication origin which contains binding sites for both proteins []. The E1 protein is a 70 kDa polypeptide with a central DNA-binding domain and a C-terminal ATPase/helicase domain. It binds specific 18 bp DNA sequences at the origin of replication, melts the DNA duplex and functions as a 3' to 5' helicase []. In addition to E2 it also interacts with DNA polymerase alpha and replication protein A to effect DNA replication. The DNA-binding domain forms a five-stranded antiparallel beta sheet bordered by four loosely packed alpha helices on one side and two tightly packed helices on the other []. Two structural modules within this domain, an extended loop and a helix, contain conserved residues and are critical for DNA binding. In solution E1 is a monomer, but binds DNA as a dimer. Recruitment of more E1 subunits to the complex leads to melting of the origin and ultimately to the formation of an E1 hexamer with helicase activity []. The entry represents the C-terminal region of E1, containing both the DNA-binding and ATPase/helical domains.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1TUE_K 1R9W_A 2V9P_B 2GXA_I 1KSX_J 1KSY_A 1F08_B.
Probab=41.68 E-value=17 Score=27.56 Aligned_cols=24 Identities=25% Similarity=0.475 Sum_probs=17.8
Q ss_pred HHHhCC--CCEEEEeeccCCCcccee
Q psy15017 62 AGSLEG--YNATILAYGQTGSGKTYT 85 (97)
Q Consensus 62 ~~~~~g--~n~~v~ayG~t~sGKt~T 85 (97)
..+|+| ...|+.-||...+||++-
T Consensus 253 k~~Lkg~PKKnClvi~GPPdTGKS~F 278 (432)
T PF00519_consen 253 KQFLKGIPKKNCLVIYGPPDTGKSMF 278 (432)
T ss_dssp HHHHHTBTTSSEEEEESSCCCSHHHH
T ss_pred HHHHhCCCcccEEEEECCCCCchhHH
Confidence 345555 366888899999999863
No 456
>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=41.67 E-value=6.5 Score=25.94 Aligned_cols=15 Identities=40% Similarity=0.483 Sum_probs=11.9
Q ss_pred EEeeccCCCccceee
Q psy15017 72 ILAYGQTGSGKTYTM 86 (97)
Q Consensus 72 v~ayG~t~sGKt~T~ 86 (97)
+.-.|.+|||||..+
T Consensus 28 ~~i~G~nGsGKSTLl 42 (211)
T cd03264 28 YGLLGPNGAGKTTLM 42 (211)
T ss_pred EEEECCCCCCHHHHH
Confidence 344699999999765
No 457
>TIGR02621 cas3_GSU0051 CRISPR-associated helicase Cas3, Anaes-subtype. This model describes a CRISPR-associated putative DEAH-box helicase, or Cas3, of a subtype found in Actinomyces naeslundii MG1, Geobacter sulfurreducens PCA, Gemmata obscuriglobus UQM 2246, and Desulfotalea psychrophila. This protein includes both DEAH and HD motifs.
Probab=41.62 E-value=26 Score=28.87 Aligned_cols=25 Identities=28% Similarity=0.211 Sum_probs=17.4
Q ss_pred HHHHHhCCCCEEEEeeccCCCcccee
Q psy15017 60 LVAGSLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 60 ~v~~~~~g~n~~v~ayG~t~sGKt~T 85 (97)
++..+++|.+- +..-.+||||||..
T Consensus 23 ~i~~il~G~~~-v~~~apTGSGKTaa 47 (844)
T TIGR02621 23 LAERFVAGQPP-ESCSTPTGLGKTSI 47 (844)
T ss_pred HHHHHHcCCCc-ceEecCCCCcccHH
Confidence 44557888853 33347999999973
No 458
>PRK11432 fbpC ferric transporter ATP-binding subunit; Provisional
Probab=41.58 E-value=13 Score=27.15 Aligned_cols=13 Identities=38% Similarity=0.682 Sum_probs=11.1
Q ss_pred eeccCCCccceee
Q psy15017 74 AYGQTGSGKTYTM 86 (97)
Q Consensus 74 ayG~t~sGKt~T~ 86 (97)
-.|.+|+|||..|
T Consensus 37 llGpsGsGKSTLL 49 (351)
T PRK11432 37 LLGPSGCGKTTVL 49 (351)
T ss_pred EECCCCCcHHHHH
Confidence 3699999999877
No 459
>smart00178 SAR Sar1p-like members of the Ras-family of small GTPases. Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus.
Probab=41.43 E-value=34 Score=22.00 Aligned_cols=20 Identities=35% Similarity=0.436 Sum_probs=15.2
Q ss_pred CCCEEEEeeccCCCccceee
Q psy15017 67 GYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 67 g~n~~v~ayG~t~sGKt~T~ 86 (97)
.....|.-.|.+|+|||..+
T Consensus 15 ~~~~~i~ivG~~~~GKTsli 34 (184)
T smart00178 15 NKHAKILFLGLDNAGKTTLL 34 (184)
T ss_pred cccCEEEEECCCCCCHHHHH
Confidence 33456777899999998765
No 460
>TIGR01188 drrA daunorubicin resistance ABC transporter ATP-binding subunit. This model describes daunorubicin resistance ABC transporter, ATP binding subunit in bacteria and archaea. This model is restricted in its scope to preferentially recognize the ATP binding subunit associated with effux of the drug, daunorubicin. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporter is the obligatory coupling of ATP hydrolysis to substrate translocation. The minimal configuration of bacterial ABC transport system: an ATPase or ATP binding subunit; An integral membrane protein; a hydrophilic polypetpide, which likely functions as substrate binding protein. In eukaryotes proteins of similar function include p-gyco proteins, multidrug resistance protein etc.
Probab=41.40 E-value=11 Score=26.63 Aligned_cols=13 Identities=46% Similarity=0.710 Sum_probs=11.2
Q ss_pred eeccCCCccceee
Q psy15017 74 AYGQTGSGKTYTM 86 (97)
Q Consensus 74 ayG~t~sGKt~T~ 86 (97)
-.|.+|+|||..|
T Consensus 24 l~G~NGaGKSTLl 36 (302)
T TIGR01188 24 FLGPNGAGKTTTI 36 (302)
T ss_pred EECCCCCCHHHHH
Confidence 4699999999876
No 461
>TIGR01663 PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase. Note that the EC number for the kinase function is: 2.7.1.78
Probab=41.23 E-value=18 Score=28.06 Aligned_cols=20 Identities=25% Similarity=0.395 Sum_probs=16.1
Q ss_pred CCCCEEEEeeccCCCcccee
Q psy15017 66 EGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 66 ~g~n~~v~ayG~t~sGKt~T 85 (97)
......|+..|..|||||+-
T Consensus 366 ~~~p~LVil~G~pGSGKST~ 385 (526)
T TIGR01663 366 DAPCEMVIAVGFPGAGKSHF 385 (526)
T ss_pred CCCceEEEEECCCCCCHHHH
Confidence 35566788889999999874
No 462
>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=41.21 E-value=11 Score=24.80 Aligned_cols=14 Identities=43% Similarity=0.684 Sum_probs=11.3
Q ss_pred EeeccCCCccceee
Q psy15017 73 LAYGQTGSGKTYTM 86 (97)
Q Consensus 73 ~ayG~t~sGKt~T~ 86 (97)
.-.|.+|+|||..+
T Consensus 31 ~l~G~nGsGKSTLl 44 (211)
T cd03225 31 LIVGPNGSGKSTLL 44 (211)
T ss_pred EEECCCCCCHHHHH
Confidence 34699999999765
No 463
>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=41.19 E-value=14 Score=24.09 Aligned_cols=16 Identities=31% Similarity=0.644 Sum_probs=13.0
Q ss_pred EEEeeccCCCccceee
Q psy15017 71 TILAYGQTGSGKTYTM 86 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T~ 86 (97)
-|+..|..|+|||--+
T Consensus 8 kivvvG~~~vGKTsli 23 (199)
T cd04110 8 KLLIIGDSGVGKSSLL 23 (199)
T ss_pred EEEEECCCCCCHHHHH
Confidence 4677899999998655
No 464
>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=41.15 E-value=21 Score=26.38 Aligned_cols=29 Identities=28% Similarity=0.391 Sum_probs=21.5
Q ss_pred HHHHHHHhCC-C--CEEEEeeccCCCccceee
Q psy15017 58 ASLVAGSLEG-Y--NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 58 ~p~v~~~~~g-~--n~~v~ayG~t~sGKt~T~ 86 (97)
-+-++.++.| . ...++-+|..|+|||..+
T Consensus 68 i~eLD~vLgGGi~~GslvLI~G~pG~GKStLl 99 (372)
T cd01121 68 IEELDRVLGGGLVPGSVILIGGDPGIGKSTLL 99 (372)
T ss_pred CHHHHHhhcCCccCCeEEEEEeCCCCCHHHHH
Confidence 3556777754 2 557888999999999755
No 465
>PRK10851 sulfate/thiosulfate transporter subunit; Provisional
Probab=41.14 E-value=14 Score=26.86 Aligned_cols=14 Identities=43% Similarity=0.624 Sum_probs=11.3
Q ss_pred EeeccCCCccceee
Q psy15017 73 LAYGQTGSGKTYTM 86 (97)
Q Consensus 73 ~ayG~t~sGKt~T~ 86 (97)
.-.|.+|||||..+
T Consensus 32 ~llGpsGsGKSTLL 45 (353)
T PRK10851 32 ALLGPSGSGKTTLL 45 (353)
T ss_pred EEECCCCCCHHHHH
Confidence 34699999999776
No 466
>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=41.09 E-value=11 Score=24.80 Aligned_cols=15 Identities=40% Similarity=0.565 Sum_probs=11.8
Q ss_pred EEeeccCCCccceee
Q psy15017 72 ILAYGQTGSGKTYTM 86 (97)
Q Consensus 72 v~ayG~t~sGKt~T~ 86 (97)
+.-.|.+|||||.-|
T Consensus 29 ~~i~G~nGsGKSTLl 43 (210)
T cd03269 29 FGLLGPNGAGKTTTI 43 (210)
T ss_pred EEEECCCCCCHHHHH
Confidence 345699999999765
No 467
>cd03241 ABC_RecN RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including 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=41.04 E-value=11 Score=26.26 Aligned_cols=13 Identities=38% Similarity=0.705 Sum_probs=10.3
Q ss_pred eeccCCCccceee
Q psy15017 74 AYGQTGSGKTYTM 86 (97)
Q Consensus 74 ayG~t~sGKt~T~ 86 (97)
-.|.+|||||--|
T Consensus 26 i~G~nGsGKS~il 38 (276)
T cd03241 26 LTGETGAGKSILL 38 (276)
T ss_pred EEcCCCCCHHHHH
Confidence 3699999998544
No 468
>TIGR02673 FtsE cell division ATP-binding protein FtsE. This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.
Probab=40.99 E-value=16 Score=24.06 Aligned_cols=15 Identities=33% Similarity=0.649 Sum_probs=11.7
Q ss_pred EEeeccCCCccceee
Q psy15017 72 ILAYGQTGSGKTYTM 86 (97)
Q Consensus 72 v~ayG~t~sGKt~T~ 86 (97)
+.-.|.+|||||..+
T Consensus 31 ~~l~G~nGsGKSTLl 45 (214)
T TIGR02673 31 LFLTGPSGAGKTTLL 45 (214)
T ss_pred EEEECCCCCCHHHHH
Confidence 334699999998765
No 469
>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=40.91 E-value=16 Score=24.47 Aligned_cols=15 Identities=33% Similarity=0.375 Sum_probs=11.7
Q ss_pred EEeeccCCCccceee
Q psy15017 72 ILAYGQTGSGKTYTM 86 (97)
Q Consensus 72 v~ayG~t~sGKt~T~ 86 (97)
+.-.|.+|||||.-|
T Consensus 29 ~~l~G~nGsGKSTLl 43 (236)
T cd03219 29 HGLIGPNGAGKTTLF 43 (236)
T ss_pred EEEECCCCCCHHHHH
Confidence 344699999999765
No 470
>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=40.77 E-value=15 Score=22.94 Aligned_cols=17 Identities=29% Similarity=0.550 Sum_probs=13.2
Q ss_pred EEEEeeccCCCccceee
Q psy15017 70 ATILAYGQTGSGKTYTM 86 (97)
Q Consensus 70 ~~v~ayG~t~sGKt~T~ 86 (97)
.-|+..|..++|||.-+
T Consensus 6 ~ki~vvG~~~~GKTsli 22 (170)
T cd04116 6 LKVILLGDGGVGKSSLM 22 (170)
T ss_pred EEEEEECCCCCCHHHHH
Confidence 34677899999998654
No 471
>TIGR01288 nodI ATP-binding ABC transporter family nodulation protein NodI. This model does not recognize the highly divergent NodI from Azorhizobium caulinodans.
Probab=40.70 E-value=11 Score=26.55 Aligned_cols=14 Identities=29% Similarity=0.408 Sum_probs=11.5
Q ss_pred EeeccCCCccceee
Q psy15017 73 LAYGQTGSGKTYTM 86 (97)
Q Consensus 73 ~ayG~t~sGKt~T~ 86 (97)
--.|.+|+|||..|
T Consensus 34 ~l~G~NGaGKSTLl 47 (303)
T TIGR01288 34 GLLGPNGAGKSTIA 47 (303)
T ss_pred EEECCCCCCHHHHH
Confidence 34699999999776
No 472
>KOG0729|consensus
Probab=40.69 E-value=16 Score=26.60 Aligned_cols=14 Identities=50% Similarity=0.940 Sum_probs=12.0
Q ss_pred EEEeeccCCCccce
Q psy15017 71 TILAYGQTGSGKTY 84 (97)
Q Consensus 71 ~v~ayG~t~sGKt~ 84 (97)
-|+.||..|+|||-
T Consensus 213 gvllygppgtgktl 226 (435)
T KOG0729|consen 213 GVLLYGPPGTGKTL 226 (435)
T ss_pred ceEEeCCCCCchhH
Confidence 47789999999984
No 473
>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=40.66 E-value=11 Score=24.94 Aligned_cols=13 Identities=38% Similarity=0.667 Sum_probs=10.8
Q ss_pred eeccCCCccceee
Q psy15017 74 AYGQTGSGKTYTM 86 (97)
Q Consensus 74 ayG~t~sGKt~T~ 86 (97)
-+|.+|+|||-.|
T Consensus 26 i~G~NGsGKStll 38 (198)
T cd03276 26 IVGNNGSGKSAIL 38 (198)
T ss_pred EECCCCCcHHHHH
Confidence 4899999998655
No 474
>KOG0635|consensus
Probab=40.59 E-value=30 Score=23.08 Aligned_cols=21 Identities=33% Similarity=0.430 Sum_probs=16.4
Q ss_pred HHhCCCCEEEEeeccCCCccc
Q psy15017 63 GSLEGYNATILAYGQTGSGKT 83 (97)
Q Consensus 63 ~~~~g~n~~v~ayG~t~sGKt 83 (97)
.++.-..|+|.--|.+||||+
T Consensus 25 ~l~~qkGcviWiTGLSgSGKS 45 (207)
T KOG0635|consen 25 KLLKQKGCVIWITGLSGSGKS 45 (207)
T ss_pred HHhcCCCcEEEEeccCCCCch
Confidence 455666777888899999994
No 475
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=40.59 E-value=21 Score=30.34 Aligned_cols=26 Identities=23% Similarity=0.284 Sum_probs=17.3
Q ss_pred HHHHhCCCCEEEEeeccCCCccceeec
Q psy15017 61 VAGSLEGYNATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 61 v~~~~~g~n~~v~ayG~t~sGKt~T~~ 87 (97)
+..+..+ +...+.-|..|+|||++|-
T Consensus 390 v~~i~~~-~r~~~v~G~AGTGKTt~l~ 415 (1102)
T PRK13826 390 IEHVAGP-ARIAAVVGRAGAGKTTMMK 415 (1102)
T ss_pred HHHHhcc-CCeEEEEeCCCCCHHHHHH
Confidence 3344333 3345567999999999873
No 476
>COG4938 Uncharacterized conserved protein [Function unknown]
Probab=40.54 E-value=11 Score=27.47 Aligned_cols=18 Identities=33% Similarity=0.512 Sum_probs=14.0
Q ss_pred CEEEEeeccCCCccceeec
Q psy15017 69 NATILAYGQTGSGKTYTMG 87 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~T~~ 87 (97)
+.+||. |...|||++|++
T Consensus 22 ~ltVF~-G~NssGKSt~iq 39 (374)
T COG4938 22 PLTVFI-GPNSSGKSTTIQ 39 (374)
T ss_pred cceEEE-cCCCCchhHHHH
Confidence 445665 999999999874
No 477
>KOG2721|consensus
Probab=40.54 E-value=53 Score=22.90 Aligned_cols=42 Identities=19% Similarity=0.274 Sum_probs=25.2
Q ss_pred eccEEecCCCcHHHHHHHHHHHHHHHHhCCCCEEEEeeccCC
Q psy15017 38 TFDYVFDMADVQTTIYELCAASLVAGSLEGYNATILAYGQTG 79 (97)
Q Consensus 38 ~fd~vf~~~~~q~~v~~~~~~p~v~~~~~g~n~~v~ayG~t~ 79 (97)
+|.++.+=+-.+++---..+..+...+|+-++--|||||++-
T Consensus 29 rFs~~h~FeKPNDe~aLnLMnscA~~Vl~ef~DIv~AyG~SD 70 (260)
T KOG2721|consen 29 RFSKVHEFEKPNDETALNLMNSCASAVLEEFPDIVFAYGYSD 70 (260)
T ss_pred hhhhhhcccCCChHHHHHHHHHHHHHHHHhccceEEEeccCc
Confidence 455554433333322223344455578888888999999874
No 478
>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP has properties intermediate between those of integral and peripheral membrane proteins and is accessible from both sides of the membrane, presumably by its interaction with HisQ and HisM. The two HisP subunits form a homodimer within the complex. The domain structure of the amino acid uptake systems is typical for prokaryote extracellular solute binding protein-dependent uptake systems. All of the amino acid uptake systems also have at least one, and in a few cases, two extracellular solute binding proteins located in the periplasm of Gram-negative bacteria, or attached to the cell membrane of Gram-positive bacteria. The best-studied member of the PAAT (polar amino acid transport) family is the HisJQM
Probab=40.49 E-value=17 Score=23.94 Aligned_cols=15 Identities=33% Similarity=0.689 Sum_probs=11.5
Q ss_pred EEeeccCCCccceee
Q psy15017 72 ILAYGQTGSGKTYTM 86 (97)
Q Consensus 72 v~ayG~t~sGKt~T~ 86 (97)
+.-.|.+|||||.-+
T Consensus 29 ~~l~G~nGsGKSTLl 43 (213)
T cd03262 29 VVIIGPSGSGKSTLL 43 (213)
T ss_pred EEEECCCCCCHHHHH
Confidence 344699999998655
No 479
>PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated
Probab=40.40 E-value=25 Score=27.46 Aligned_cols=16 Identities=31% Similarity=0.524 Sum_probs=12.6
Q ss_pred CEEEEeeccCCCccce
Q psy15017 69 NATILAYGQTGSGKTY 84 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~ 84 (97)
..+|+-.|..|||||.
T Consensus 392 g~~Ivl~Gl~GSGKST 407 (568)
T PRK05537 392 GFTVFFTGLSGAGKST 407 (568)
T ss_pred CeEEEEECCCCChHHH
Confidence 3467777999999974
No 480
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=40.34 E-value=11 Score=24.86 Aligned_cols=20 Identities=25% Similarity=0.235 Sum_probs=16.2
Q ss_pred CEEEEeeccCCCccceeecC
Q psy15017 69 NATILAYGQTGSGKTYTMGT 88 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~T~~G 88 (97)
.+.|..|+-+|.|||+..+|
T Consensus 5 ~Gli~v~~g~GkGKtt~a~g 24 (173)
T TIGR00708 5 RGIIIVHTGNGKGKTTAAFG 24 (173)
T ss_pred ccEEEEECCCCCChHHHHHH
Confidence 35788899999999987654
No 481
>KOG0164|consensus
Probab=40.29 E-value=23 Score=29.01 Aligned_cols=20 Identities=35% Similarity=0.572 Sum_probs=17.6
Q ss_pred CCCCEEEEeeccCCCcccee
Q psy15017 66 EGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 66 ~g~n~~v~ayG~t~sGKt~T 85 (97)
.+.+.||+--|.+|+|||-+
T Consensus 91 r~rDtcI~ISGESGAGKTEA 110 (1001)
T KOG0164|consen 91 RSRDTCILISGESGAGKTEA 110 (1001)
T ss_pred ccCCeEEEEecCCCCCccHH
Confidence 48899999999999999853
No 482
>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=40.28 E-value=17 Score=23.95 Aligned_cols=15 Identities=40% Similarity=0.756 Sum_probs=11.6
Q ss_pred EEeeccCCCccceee
Q psy15017 72 ILAYGQTGSGKTYTM 86 (97)
Q Consensus 72 v~ayG~t~sGKt~T~ 86 (97)
+.-.|.+|||||.-+
T Consensus 29 ~~l~G~nGsGKSTLl 43 (213)
T cd03301 29 VVLLGPSGCGKTTTL 43 (213)
T ss_pred EEEECCCCCCHHHHH
Confidence 334699999998755
No 483
>COG0419 SbcC ATPase involved in DNA repair [DNA replication, recombination, and repair]
Probab=40.23 E-value=16 Score=29.99 Aligned_cols=13 Identities=38% Similarity=0.695 Sum_probs=9.9
Q ss_pred EEeeccCCCccce
Q psy15017 72 ILAYGQTGSGKTY 84 (97)
Q Consensus 72 v~ayG~t~sGKt~ 84 (97)
.+-.|.+|||||.
T Consensus 28 ~lI~G~nGsGKSS 40 (908)
T COG0419 28 FLIVGPNGAGKSS 40 (908)
T ss_pred EEEECCCCCcHHH
Confidence 3356999999963
No 484
>TIGR00763 lon ATP-dependent protease La. This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.
Probab=40.20 E-value=44 Score=27.04 Aligned_cols=16 Identities=31% Similarity=0.337 Sum_probs=12.8
Q ss_pred EEEeeccCCCccceee
Q psy15017 71 TILAYGQTGSGKTYTM 86 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T~ 86 (97)
.++-||.+|+|||+..
T Consensus 349 ~lll~GppG~GKT~lA 364 (775)
T TIGR00763 349 ILCLVGPPGVGKTSLG 364 (775)
T ss_pred eEEEECCCCCCHHHHH
Confidence 4666999999998653
No 485
>CHL00176 ftsH cell division protein; Validated
Probab=40.15 E-value=13 Score=29.46 Aligned_cols=16 Identities=38% Similarity=0.596 Sum_probs=13.6
Q ss_pred EEEeeccCCCccceee
Q psy15017 71 TILAYGQTGSGKTYTM 86 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T~ 86 (97)
.++-||.+|+|||+..
T Consensus 218 gVLL~GPpGTGKT~LA 233 (638)
T CHL00176 218 GVLLVGPPGTGKTLLA 233 (638)
T ss_pred eEEEECCCCCCHHHHH
Confidence 4778999999999864
No 486
>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=40.12 E-value=12 Score=25.18 Aligned_cols=14 Identities=29% Similarity=0.558 Sum_probs=11.2
Q ss_pred EeeccCCCccceee
Q psy15017 73 LAYGQTGSGKTYTM 86 (97)
Q Consensus 73 ~ayG~t~sGKt~T~ 86 (97)
.-.|.+|||||..+
T Consensus 31 ~i~G~nGsGKSTLl 44 (241)
T cd03256 31 ALIGPSGAGKSTLL 44 (241)
T ss_pred EEECCCCCCHHHHH
Confidence 34699999998765
No 487
>PRK13898 type IV secretion system ATPase VirB4; Provisional
Probab=40.01 E-value=11 Score=30.37 Aligned_cols=17 Identities=47% Similarity=0.645 Sum_probs=14.0
Q ss_pred EEEEeeccCCCccceee
Q psy15017 70 ATILAYGQTGSGKTYTM 86 (97)
Q Consensus 70 ~~v~ayG~t~sGKt~T~ 86 (97)
...+..|.+|||||..|
T Consensus 447 ~~~~i~G~tGsGKS~l~ 463 (800)
T PRK13898 447 GHTLIIGPTGAGKTVLM 463 (800)
T ss_pred CEEEEECCCCCcHHHHH
Confidence 44667899999999876
No 488
>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]
Probab=40.00 E-value=25 Score=23.85 Aligned_cols=22 Identities=41% Similarity=0.567 Sum_probs=15.1
Q ss_pred HHhCCCC-EEEEeeccCCCccce
Q psy15017 63 GSLEGYN-ATILAYGQTGSGKTY 84 (97)
Q Consensus 63 ~~~~g~n-~~v~ayG~t~sGKt~ 84 (97)
..+.+.. ++|.-=|.+|||||.
T Consensus 16 ~~~~~~~~~viW~TGLSGsGKST 38 (197)
T COG0529 16 EALKGQKGAVIWFTGLSGSGKST 38 (197)
T ss_pred HHHhCCCCeEEEeecCCCCCHHH
Confidence 3455665 455555999999973
No 489
>PRK10869 recombination and repair protein; Provisional
Probab=40.00 E-value=18 Score=28.07 Aligned_cols=10 Identities=50% Similarity=0.906 Sum_probs=8.7
Q ss_pred eccCCCccce
Q psy15017 75 YGQTGSGKTY 84 (97)
Q Consensus 75 yG~t~sGKt~ 84 (97)
.|.||+|||-
T Consensus 28 tGetGaGKS~ 37 (553)
T PRK10869 28 TGETGAGKSI 37 (553)
T ss_pred ECCCCCChHH
Confidence 5999999974
No 490
>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=39.99 E-value=12 Score=25.18 Aligned_cols=14 Identities=36% Similarity=0.593 Sum_probs=11.2
Q ss_pred EeeccCCCccceee
Q psy15017 73 LAYGQTGSGKTYTM 86 (97)
Q Consensus 73 ~ayG~t~sGKt~T~ 86 (97)
.-.|.+|||||..+
T Consensus 30 ~l~G~nGsGKSTLl 43 (235)
T cd03261 30 AIIGPSGSGKSTLL 43 (235)
T ss_pred EEECCCCCCHHHHH
Confidence 44699999999755
No 491
>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=39.98 E-value=17 Score=22.91 Aligned_cols=16 Identities=38% Similarity=0.592 Sum_probs=12.5
Q ss_pred EEEeeccCCCccceee
Q psy15017 71 TILAYGQTGSGKTYTM 86 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T~ 86 (97)
.+.-.|..|+|||.-+
T Consensus 24 ~i~l~G~lGaGKTtl~ 39 (133)
T TIGR00150 24 VVLLKGDLGAGKTTLV 39 (133)
T ss_pred EEEEEcCCCCCHHHHH
Confidence 4666799999997643
No 492
>TIGR01650 PD_CobS cobaltochelatase, CobS subunit. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.
Probab=39.96 E-value=37 Score=24.81 Aligned_cols=25 Identities=24% Similarity=0.432 Sum_probs=16.4
Q ss_pred HHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 60 LVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 60 ~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
++..+..+.+ |+-.|.+|+|||...
T Consensus 57 vl~~l~~~~~--ilL~G~pGtGKTtla 81 (327)
T TIGR01650 57 ICAGFAYDRR--VMVQGYHGTGKSTHI 81 (327)
T ss_pred HHHHHhcCCc--EEEEeCCCChHHHHH
Confidence 3334444444 666899999998643
No 493
>KOG0331|consensus
Probab=39.88 E-value=19 Score=27.96 Aligned_cols=24 Identities=33% Similarity=0.361 Sum_probs=17.3
Q ss_pred HHHHHhCCCCEEEEeeccCCCcccee
Q psy15017 60 LVAGSLEGYNATILAYGQTGSGKTYT 85 (97)
Q Consensus 60 ~v~~~~~g~n~~v~ayG~t~sGKt~T 85 (97)
.+.-+++|.+.. +-.+||||||..
T Consensus 121 ~wp~~l~GrD~v--~iA~TGSGKTLa 144 (519)
T KOG0331|consen 121 GWPIALSGRDLV--GIARTGSGKTLA 144 (519)
T ss_pred ccceeccCCceE--EEeccCCcchhh
Confidence 344577888754 566999999853
No 494
>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=39.87 E-value=15 Score=29.41 Aligned_cols=16 Identities=38% Similarity=0.725 Sum_probs=12.7
Q ss_pred EEEeeccCCCccceee
Q psy15017 71 TILAYGQTGSGKTYTM 86 (97)
Q Consensus 71 ~v~ayG~t~sGKt~T~ 86 (97)
.++-||..|+|||...
T Consensus 489 giLL~GppGtGKT~la 504 (733)
T TIGR01243 489 GVLLFGPPGTGKTLLA 504 (733)
T ss_pred eEEEECCCCCCHHHHH
Confidence 3566999999998753
No 495
>KOG0346|consensus
Probab=39.81 E-value=17 Score=28.09 Aligned_cols=23 Identities=43% Similarity=0.611 Sum_probs=18.3
Q ss_pred HHHHHhCCCCEEEEeeccCCCccce
Q psy15017 60 LVAGSLEGYNATILAYGQTGSGKTY 84 (97)
Q Consensus 60 ~v~~~~~g~n~~v~ayG~t~sGKt~ 84 (97)
.|.-+++|.+ |+|=..||||||-
T Consensus 49 aIplaLEgKD--vvarArTGSGKT~ 71 (569)
T KOG0346|consen 49 AIPLALEGKD--VVARARTGSGKTA 71 (569)
T ss_pred ccchhhcCcc--eeeeeccCCCchH
Confidence 4556889995 6688899999984
No 496
>TIGR03522 GldA_ABC_ATP gliding motility-associated ABC transporter ATP-binding subunit GldA. Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldA is an ABC transporter ATP-binding protein (pfam00005) linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockouts of GldA abolish the gliding phenotype. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility.
Probab=39.75 E-value=13 Score=26.18 Aligned_cols=15 Identities=40% Similarity=0.605 Sum_probs=12.1
Q ss_pred EEeeccCCCccceee
Q psy15017 72 ILAYGQTGSGKTYTM 86 (97)
Q Consensus 72 v~ayG~t~sGKt~T~ 86 (97)
+.-.|.+|+|||..|
T Consensus 31 ~~l~G~NGaGKTTLl 45 (301)
T TIGR03522 31 VGFLGPNGAGKSTTM 45 (301)
T ss_pred EEEECCCCCCHHHHH
Confidence 334699999999877
No 497
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=39.67 E-value=45 Score=27.13 Aligned_cols=16 Identities=44% Similarity=0.555 Sum_probs=13.5
Q ss_pred EEEEeeccCCCcccee
Q psy15017 70 ATILAYGQTGSGKTYT 85 (97)
Q Consensus 70 ~~v~ayG~t~sGKt~T 85 (97)
+.++-+|.+|+|||+.
T Consensus 489 ~~~Lf~GP~GvGKT~l 504 (758)
T PRK11034 489 GSFLFAGPTGVGKTEV 504 (758)
T ss_pred ceEEEECCCCCCHHHH
Confidence 5678889999999864
No 498
>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=39.66 E-value=16 Score=23.01 Aligned_cols=18 Identities=33% Similarity=0.488 Sum_probs=13.7
Q ss_pred CEEEEeeccCCCccceee
Q psy15017 69 NATILAYGQTGSGKTYTM 86 (97)
Q Consensus 69 n~~v~ayG~t~sGKt~T~ 86 (97)
..-|.-.|..++|||.-+
T Consensus 14 ~~kv~ivG~~~~GKTsL~ 31 (173)
T cd04154 14 EMRILILGLDNAGKTTIL 31 (173)
T ss_pred ccEEEEECCCCCCHHHHH
Confidence 345667899999998654
No 499
>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]
Probab=39.40 E-value=31 Score=24.61 Aligned_cols=35 Identities=20% Similarity=0.217 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHHhCCCCEEEEeeccCCCccceee
Q psy15017 51 TIYELCAASLVAGSLEGYNATILAYGQTGSGKTYTM 86 (97)
Q Consensus 51 ~v~~~~~~p~v~~~~~g~n~~v~ayG~t~sGKt~T~ 86 (97)
++| .+..||+..+.+.--...+-.|..++|||.-+
T Consensus 120 ~v~-Gt~~~li~~ly~~g~lntLiigpP~~GKTTlL 154 (308)
T COG3854 120 QVF-GTANPLIKDLYQNGWLNTLIIGPPQVGKTTLL 154 (308)
T ss_pred hhh-ccchHHHHHHHhcCceeeEEecCCCCChHHHH
Confidence 344 44667999998655444556799999998643
No 500
>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=39.35 E-value=31 Score=21.82 Aligned_cols=17 Identities=24% Similarity=0.413 Sum_probs=12.8
Q ss_pred EEEEeeccCCCccceee
Q psy15017 70 ATILAYGQTGSGKTYTM 86 (97)
Q Consensus 70 ~~v~ayG~t~sGKt~T~ 86 (97)
.-|...|..++|||.-+
T Consensus 16 ~kv~~~G~~~~GKTsl~ 32 (174)
T cd04153 16 YKVIIVGLDNAGKTTIL 32 (174)
T ss_pred cEEEEECCCCCCHHHHH
Confidence 34667899999998533
Done!