Query psy3060
Match_columns 268
No_of_seqs 90 out of 92
Neff 1.8
Searched_HMMs 46136
Date Sat Aug 17 00:40:40 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3060.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/3060hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00853 Runt: Runt domain; I 100.0 4.3E-73 9.3E-78 468.3 11.2 120 22-141 1-131 (135)
2 KOG3982|consensus 100.0 5.5E-73 1.2E-77 530.4 9.0 154 18-171 94-260 (475)
3 cd04159 Arl10_like Arl10-like 68.0 2.5 5.4E-05 30.4 0.9 16 107-122 1-16 (159)
4 cd01858 NGP_1 NGP-1. Autoanti 64.9 2.5 5.4E-05 33.0 0.4 13 110-122 107-119 (157)
5 PRK14238 phosphate transporter 56.9 11 0.00024 32.5 2.9 52 75-127 4-72 (271)
6 PF12846 AAA_10: AAA-like doma 56.1 3.5 7.6E-05 33.6 -0.2 16 110-125 6-21 (304)
7 cd01852 AIG1 AIG1 (avrRpt2-ind 55.7 4.7 0.0001 32.6 0.5 15 108-122 3-17 (196)
8 TIGR03729 acc_ester putative p 53.8 12 0.00026 31.5 2.6 42 74-115 61-110 (239)
9 PF00005 ABC_tran: ABC transpo 53.6 5.5 0.00012 29.7 0.5 20 108-127 14-33 (137)
10 COG2274 SunT ABC-type bacterio 53.5 12 0.00026 38.4 3.0 51 77-135 477-532 (709)
11 TIGR02788 VirB11 P-type DNA tr 53.0 21 0.00047 31.8 4.2 53 25-88 42-97 (308)
12 cd01856 YlqF YlqF. Proteins o 52.9 5.2 0.00011 31.9 0.3 45 75-120 77-130 (171)
13 PF01926 MMR_HSR1: 50S ribosom 49.8 6.8 0.00015 28.7 0.5 12 108-119 2-13 (116)
14 PF13304 AAA_21: AAA domain; P 48.0 6 0.00013 29.2 0.0 16 110-125 4-19 (303)
15 cd03279 ABC_sbcCD SbcCD and ot 47.8 10 0.00022 31.5 1.3 16 109-124 32-47 (213)
16 cd01876 YihA_EngB The YihA (En 47.7 8.7 0.00019 27.8 0.8 17 107-123 1-17 (170)
17 smart00175 RAB Rab subfamily o 46.4 7.9 0.00017 28.7 0.4 12 109-120 4-15 (164)
18 PRK13891 conjugal transfer pro 45.8 8.5 0.00018 39.5 0.7 95 25-124 396-507 (852)
19 cd01881 Obg_like The Obg-like 45.7 7 0.00015 29.3 0.0 10 110-119 1-10 (176)
20 COG1132 MdlB ABC-type multidru 45.4 8.1 0.00018 36.5 0.4 10 110-119 360-369 (567)
21 COG1116 TauB ABC-type nitrate/ 44.8 8.3 0.00018 35.5 0.4 17 109-125 33-49 (248)
22 cd03273 ABC_SMC2_euk Eukaryoti 44.5 8.8 0.00019 32.5 0.5 15 109-123 29-43 (251)
23 TIGR02323 CP_lyasePhnK phospho 44.2 14 0.0003 31.0 1.6 17 109-125 33-49 (253)
24 cd03292 ABC_FtsE_transporter F 44.0 15 0.00032 29.8 1.6 19 108-126 30-48 (214)
25 cd04114 Rab30 Rab30 subfamily. 43.5 11 0.00025 28.3 0.9 17 104-120 6-22 (169)
26 cd00820 PEPCK_HprK Phosphoenol 42.4 10 0.00022 30.4 0.5 18 108-125 18-35 (107)
27 PF13555 AAA_29: P-loop contai 42.0 10 0.00022 28.0 0.4 20 101-120 15-38 (62)
28 COG3638 ABC-type phosphate/pho 41.5 16 0.00034 34.2 1.7 14 110-123 35-48 (258)
29 cd01853 Toc34_like Toc34-like 41.2 10 0.00022 33.4 0.4 15 108-122 34-48 (249)
30 cd01898 Obg Obg subfamily. Th 40.9 12 0.00027 28.0 0.7 13 107-119 2-14 (170)
31 PF03193 DUF258: Protein of un 40.8 11 0.00023 32.1 0.4 33 81-121 19-51 (161)
32 PF13207 AAA_17: AAA domain; P 40.5 12 0.00025 27.3 0.5 11 110-120 4-14 (121)
33 cd03272 ABC_SMC3_euk Eukaryoti 40.3 12 0.00025 31.1 0.5 13 109-121 27-39 (243)
34 cd04155 Arl3 Arl3 subfamily. 39.0 12 0.00027 28.3 0.5 13 108-120 17-29 (173)
35 TIGR02868 CydC thiol reductant 39.0 12 0.00025 34.9 0.4 31 90-124 350-380 (529)
36 cd04119 RJL RJL (RabJ-Like) su 38.9 12 0.00026 27.6 0.4 11 109-119 4-14 (168)
37 TIGR03263 guanyl_kin guanylate 38.8 12 0.00026 29.3 0.4 17 109-125 5-21 (180)
38 TIGR00157 ribosome small subun 37.8 13 0.00028 32.3 0.5 38 76-122 100-137 (245)
39 cd04104 p47_IIGP_like p47 (47- 37.4 13 0.00028 30.4 0.4 12 108-119 4-15 (197)
40 cd03263 ABC_subfamily_A The AB 37.2 13 0.00029 30.2 0.4 19 108-126 31-49 (220)
41 cd00154 Rab Rab family. Rab G 37.1 13 0.00029 26.5 0.4 12 108-119 3-14 (159)
42 PF01935 DUF87: Domain of unkn 36.9 11 0.00023 31.1 -0.2 17 110-126 28-44 (229)
43 cd01857 HSR1_MMR1 HSR1/MMR1. 35.8 32 0.0007 26.5 2.3 14 107-120 85-98 (141)
44 cd03224 ABC_TM1139_LivF_branch 35.8 14 0.00031 30.0 0.4 19 108-126 29-47 (222)
45 cd01859 MJ1464 MJ1464. This f 35.8 13 0.00028 28.7 0.1 44 76-120 73-116 (156)
46 cd03225 ABC_cobalt_CbiO_domain 35.6 15 0.00032 29.8 0.4 19 108-126 30-48 (211)
47 cd01879 FeoB Ferrous iron tran 35.5 12 0.00027 27.5 0.0 10 110-119 1-10 (158)
48 TIGR01166 cbiO cobalt transpor 35.3 15 0.00032 29.5 0.4 19 108-126 21-39 (190)
49 TIGR02528 EutP ethanolamine ut 35.2 15 0.00032 27.2 0.4 12 108-119 3-14 (142)
50 cd03278 ABC_SMC_barmotin Barmo 35.1 15 0.00033 30.6 0.5 16 109-124 26-41 (197)
51 cd03235 ABC_Metallic_Cations A 34.8 15 0.00033 29.9 0.4 18 109-126 29-46 (213)
52 PF04665 Pox_A32: Poxvirus A32 34.7 16 0.00034 33.1 0.5 14 109-122 17-30 (241)
53 cd03264 ABC_drug_resistance_li 34.6 15 0.00033 29.8 0.4 19 108-126 28-46 (211)
54 cd01918 HprK_C HprK/P, the bif 34.6 16 0.00034 30.8 0.4 12 108-119 17-28 (149)
55 cd04160 Arfrp1 Arfrp1 subfamil 34.5 16 0.00036 27.4 0.5 12 108-119 2-13 (167)
56 cd01868 Rab11_like Rab11-like. 34.5 16 0.00034 27.6 0.4 13 108-120 6-18 (165)
57 cd03274 ABC_SMC4_euk Eukaryoti 34.4 16 0.00035 30.9 0.5 17 109-125 29-45 (212)
58 PRK11174 cysteine/glutathione 34.3 15 0.00033 34.7 0.4 13 109-121 380-392 (588)
59 cd00882 Ras_like_GTPase Ras-li 34.3 13 0.00029 25.3 -0.0 11 110-120 1-11 (157)
60 PRK12288 GTPase RsgA; Reviewed 34.3 15 0.00033 34.1 0.4 40 75-123 184-223 (347)
61 cd04164 trmE TrmE (MnmE, ThdF, 34.2 16 0.00035 26.5 0.4 12 108-119 4-15 (157)
62 cd03261 ABC_Org_Solvent_Resist 34.2 16 0.00034 30.3 0.4 18 108-125 29-46 (235)
63 PRK14257 phosphate ABC transpo 33.9 16 0.00034 33.2 0.4 19 108-126 111-129 (329)
64 TIGR02673 FtsE cell division A 33.8 16 0.00035 29.6 0.4 18 109-126 32-49 (214)
65 PF04548 AIG1: AIG1 family; I 33.8 16 0.00035 30.5 0.4 12 110-121 5-16 (212)
66 cd04123 Rab21 Rab21 subfamily. 33.7 19 0.00041 26.4 0.7 14 108-121 3-16 (162)
67 TIGR03797 NHPM_micro_ABC2 NHPM 33.7 16 0.00035 35.5 0.4 17 108-124 482-498 (686)
68 PF05356 Phage_Coat_B: Phage C 33.6 14 0.0003 29.8 0.0 15 97-111 3-17 (83)
69 cd03277 ABC_SMC5_euk Eukaryoti 33.5 26 0.00056 29.8 1.6 32 91-123 8-41 (213)
70 PF10442 FIST_C: FIST C domain 33.3 15 0.00033 28.0 0.2 34 65-98 50-83 (136)
71 TIGR01193 bacteriocin_ABC ABC- 33.0 17 0.00036 35.5 0.4 19 108-126 503-521 (708)
72 TIGR00231 small_GTP small GTP- 32.9 17 0.00038 25.4 0.4 12 109-120 5-16 (161)
73 PRK13539 cytochrome c biogenes 32.9 17 0.00037 29.8 0.4 18 109-126 32-49 (207)
74 PRK13894 conjugal transfer ATP 32.8 82 0.0018 29.0 4.8 92 22-123 66-166 (319)
75 PRK11176 lipid transporter ATP 32.8 17 0.00037 34.2 0.4 18 108-125 372-389 (582)
76 cd03269 ABC_putative_ATPase Th 32.7 17 0.00037 29.5 0.4 19 108-126 29-47 (210)
77 cd03262 ABC_HisP_GlnQ_permease 32.5 18 0.00038 29.3 0.4 18 109-126 30-47 (213)
78 cd03265 ABC_DrrA DrrA is the A 32.5 18 0.00038 29.7 0.4 18 109-126 30-47 (220)
79 cd04138 H_N_K_Ras_like H-Ras/N 32.5 18 0.00038 26.6 0.4 12 108-119 4-15 (162)
80 COG4987 CydC ABC-type transpor 32.3 16 0.00036 37.4 0.3 20 109-128 368-387 (573)
81 TIGR00960 3a0501s02 Type II (G 32.3 18 0.00039 29.5 0.4 19 108-126 32-50 (216)
82 PLN03232 ABC transporter C fam 32.2 17 0.00037 39.5 0.4 25 91-119 1252-1276(1495)
83 PRK00098 GTPase RsgA; Reviewed 32.1 18 0.00038 32.3 0.4 39 76-123 144-182 (298)
84 cd03266 ABC_NatA_sodium_export 31.6 18 0.0004 29.4 0.4 19 108-126 34-52 (218)
85 cd04171 SelB SelB subfamily. 31.6 20 0.00043 26.5 0.5 11 109-119 4-14 (164)
86 PRK10790 putative multidrug tr 31.5 18 0.0004 34.3 0.4 19 109-127 371-389 (592)
87 cd00876 Ras Ras family. The R 31.3 19 0.00041 26.4 0.4 13 109-121 3-15 (160)
88 cd01120 RecA-like_NTPases RecA 31.3 18 0.00038 26.4 0.2 16 110-125 4-19 (165)
89 cd00844 MPP_Dbr1_N Dbr1 RNA la 31.2 83 0.0018 28.3 4.4 44 78-121 77-129 (262)
90 cd03293 ABC_NrtD_SsuB_transpor 31.0 19 0.00042 29.5 0.4 18 108-125 33-50 (220)
91 PRK10584 putative ABC transpor 30.9 19 0.00042 29.6 0.4 19 108-126 39-57 (228)
92 cd03257 ABC_NikE_OppD_transpor 30.4 20 0.00043 29.2 0.4 19 108-126 34-52 (228)
93 PRK14241 phosphate transporter 30.4 20 0.00043 30.3 0.4 20 108-127 33-52 (258)
94 COG1135 AbcC ABC-type metal io 30.3 19 0.00041 34.9 0.3 14 109-122 36-49 (339)
95 cd04139 RalA_RalB RalA/RalB su 30.2 23 0.0005 26.1 0.7 12 108-119 3-14 (164)
96 cd01860 Rab5_related Rab5-rela 30.2 20 0.00044 26.7 0.4 14 108-121 4-17 (163)
97 PLN03130 ABC transporter C fam 30.2 19 0.00042 39.7 0.4 13 108-120 1268-1280(1622)
98 COG1126 GlnQ ABC-type polar am 30.2 23 0.0005 33.0 0.8 15 108-122 31-45 (240)
99 cd03219 ABC_Mj1267_LivG_branch 30.0 20 0.00044 29.5 0.4 18 109-126 30-47 (236)
100 TIGR03796 NHPM_micro_ABC1 NHPM 30.0 20 0.00043 34.9 0.4 18 108-125 508-525 (710)
101 TIGR03410 urea_trans_UrtE urea 29.9 21 0.00045 29.4 0.4 19 108-126 29-47 (230)
102 cd04106 Rab23_lke Rab23-like s 29.8 21 0.00045 26.6 0.4 12 108-119 3-14 (162)
103 cd03270 ABC_UvrA_I The excisio 29.8 21 0.00045 30.2 0.4 14 109-122 25-38 (226)
104 TIGR02746 TraC-F-type type-IV 29.7 17 0.00037 35.8 -0.1 18 108-125 433-450 (797)
105 cd01861 Rab6 Rab6 subfamily. 29.7 21 0.00046 26.6 0.4 12 109-120 4-15 (161)
106 PF02463 SMC_N: RecF/RecN/SMC 29.6 29 0.00064 28.2 1.3 29 91-119 7-38 (220)
107 TIGR03608 L_ocin_972_ABC putat 29.6 21 0.00046 28.7 0.4 19 109-127 28-46 (206)
108 PRK14245 phosphate ABC transpo 29.6 21 0.00045 30.0 0.4 17 109-125 33-49 (250)
109 PRK10078 ribose 1,5-bisphospho 29.4 21 0.00046 28.9 0.4 17 109-125 6-22 (186)
110 cd03255 ABC_MJ0796_Lo1CDE_FtsE 29.4 21 0.00046 29.0 0.4 17 109-125 34-50 (218)
111 TIGR02204 MsbA_rel ABC transpo 29.4 21 0.00045 33.5 0.4 15 108-122 369-383 (576)
112 PRK15467 ethanolamine utilizat 29.4 21 0.00046 28.2 0.4 15 108-122 4-18 (158)
113 KOG3587|consensus 29.3 48 0.001 27.0 2.4 21 116-136 86-106 (143)
114 COG1124 DppF ABC-type dipeptid 29.3 24 0.00053 32.8 0.8 18 108-125 36-53 (252)
115 TIGR01184 ntrCD nitrate transp 29.2 21 0.00046 29.8 0.4 17 109-125 15-31 (230)
116 PRK09825 idnK D-gluconate kina 29.2 21 0.00046 29.4 0.4 17 108-124 6-22 (176)
117 cd03218 ABC_YhbG The ABC trans 29.2 21 0.00046 29.3 0.4 18 108-125 29-46 (232)
118 cd03258 ABC_MetN_methionine_tr 29.2 21 0.00047 29.4 0.4 18 108-125 34-51 (233)
119 TIGR00957 MRP_assoc_pro multi 29.1 21 0.00045 38.9 0.4 26 90-119 1301-1326(1522)
120 cd03259 ABC_Carb_Solutes_like 29.1 22 0.00047 29.0 0.4 19 108-126 29-47 (213)
121 PF10662 PduV-EutP: Ethanolami 29.1 21 0.00047 30.0 0.4 12 108-119 4-15 (143)
122 COG4988 CydD ABC-type transpor 29.0 21 0.00047 36.3 0.5 31 105-135 347-380 (559)
123 cd03231 ABC_CcmA_heme_exporter 29.0 22 0.00047 29.0 0.4 19 108-126 29-47 (201)
124 PRK10522 multidrug transporter 28.6 22 0.00047 33.7 0.4 18 108-125 352-369 (547)
125 cd03254 ABCC_Glucan_exporter_l 28.6 30 0.00066 28.3 1.2 18 109-126 33-50 (229)
126 cd03216 ABC_Carb_Monos_I This 28.6 23 0.00049 28.3 0.4 19 110-128 31-49 (163)
127 cd01864 Rab19 Rab19 subfamily. 28.5 23 0.00049 26.9 0.4 12 108-119 6-17 (165)
128 PRK10418 nikD nickel transport 28.5 22 0.00049 30.0 0.4 18 108-125 32-49 (254)
129 cd03234 ABCG_White The White s 28.4 23 0.0005 29.3 0.5 21 108-128 36-56 (226)
130 PRK14249 phosphate ABC transpo 28.2 23 0.00049 29.8 0.4 19 109-127 34-52 (251)
131 TIGR01271 CFTR_protein cystic 28.2 22 0.00048 38.7 0.4 12 108-119 1248-1259(1490)
132 cd01363 Motor_domain Myosin an 28.2 28 0.0006 28.6 0.9 14 111-124 30-43 (186)
133 PRK05541 adenylylsulfate kinas 28.2 23 0.0005 28.0 0.4 14 108-121 10-23 (176)
134 PRK13652 cbiO cobalt transport 28.2 23 0.00049 30.7 0.4 18 109-126 34-51 (277)
135 cd00879 Sar1 Sar1 subfamily. 28.1 23 0.00051 27.6 0.4 13 108-120 22-34 (190)
136 PRK04213 GTP-binding protein; 28.1 23 0.0005 28.0 0.4 13 108-120 12-24 (201)
137 cd04115 Rab33B_Rab33A Rab33B/R 28.1 23 0.0005 27.3 0.4 12 108-119 5-16 (170)
138 KOG0214|consensus 28.0 41 0.00088 37.0 2.3 65 152-216 444-510 (1141)
139 cd03250 ABCC_MRP_domain1 Domai 28.0 34 0.00075 27.7 1.4 19 108-126 34-52 (204)
140 cd01894 EngA1 EngA1 subfamily. 27.9 21 0.00046 26.0 0.1 10 110-119 2-11 (157)
141 cd03260 ABC_PstB_phosphate_tra 27.7 24 0.00051 29.0 0.4 21 108-128 29-49 (227)
142 PRK10261 glutathione transport 27.7 43 0.00093 32.8 2.2 18 109-126 46-63 (623)
143 PRK10744 pstB phosphate transp 27.7 23 0.00051 30.0 0.4 18 109-126 43-60 (260)
144 TIGR02211 LolD_lipo_ex lipopro 27.7 24 0.00052 28.8 0.4 17 109-125 35-51 (221)
145 cd03301 ABC_MalK_N The N-termi 27.5 24 0.00052 28.6 0.4 18 109-126 30-47 (213)
146 cd03214 ABC_Iron-Siderophores_ 27.4 24 0.00053 28.3 0.4 18 110-127 30-47 (180)
147 PRK00300 gmk guanylate kinase; 27.4 25 0.00054 28.3 0.5 12 108-119 8-19 (205)
148 cd04177 RSR1 RSR1 subgroup. R 27.4 24 0.00052 27.1 0.4 14 108-121 4-17 (168)
149 TIGR02857 CydD thiol reductant 27.4 24 0.00052 33.0 0.4 20 108-127 351-370 (529)
150 cd03226 ABC_cobalt_CbiO_domain 27.3 24 0.00053 28.6 0.4 19 108-126 29-47 (205)
151 PRK00454 engB GTP-binding prot 27.3 25 0.00054 27.3 0.5 15 107-121 26-40 (196)
152 PRK13638 cbiO cobalt transport 27.3 24 0.00052 30.2 0.4 19 108-126 30-48 (271)
153 PF00004 AAA: ATPase family as 27.2 22 0.00048 25.6 0.1 18 110-127 3-20 (132)
154 TIGR01978 sufC FeS assembly AT 27.2 25 0.00054 29.0 0.5 20 108-127 29-48 (243)
155 PRK14250 phosphate ABC transpo 27.1 25 0.00053 29.6 0.4 19 108-126 32-50 (241)
156 cd08365 APC10-like1 APC10-like 27.1 1.7E+02 0.0036 24.6 5.3 21 75-95 67-87 (131)
157 PTZ00243 ABC transporter; Prov 27.1 24 0.00052 38.8 0.4 13 108-120 1339-1351(1560)
158 TIGR00235 udk uridine kinase. 27.0 25 0.00053 29.0 0.4 13 108-120 9-21 (207)
159 CHL00131 ycf16 sulfate ABC tra 27.0 25 0.00054 29.4 0.4 18 110-127 38-55 (252)
160 cd03247 ABCC_cytochrome_bd The 27.0 25 0.00054 28.1 0.4 19 108-126 31-49 (178)
161 PRK14261 phosphate ABC transpo 26.9 25 0.00054 29.6 0.4 18 109-126 36-53 (253)
162 PRK14251 phosphate ABC transpo 26.9 25 0.00054 29.4 0.4 18 108-125 33-50 (251)
163 PRK10359 lipopolysaccharide co 26.9 1.5E+02 0.0032 26.5 5.3 74 104-183 32-105 (232)
164 PRK15177 Vi polysaccharide exp 26.8 25 0.00055 29.3 0.4 18 109-126 17-34 (213)
165 cd03296 ABC_CysA_sulfate_impor 26.8 25 0.00054 29.3 0.4 19 108-126 31-49 (239)
166 cd01887 IF2_eIF5B IF2/eIF5B (i 26.8 27 0.00058 26.1 0.5 11 109-119 4-14 (168)
167 PRK13538 cytochrome c biogenes 26.7 25 0.00055 28.7 0.4 18 109-126 31-48 (204)
168 PRK14269 phosphate ABC transpo 26.7 25 0.00055 29.5 0.4 17 109-125 32-48 (246)
169 TIGR02315 ABC_phnC phosphonate 26.7 25 0.00055 29.1 0.4 17 109-125 32-48 (243)
170 COG1136 SalX ABC-type antimicr 26.7 24 0.00051 31.8 0.2 16 110-125 36-51 (226)
171 PF00910 RNA_helicase: RNA hel 26.7 24 0.00051 26.6 0.2 15 110-124 3-17 (107)
172 PRK13657 cyclic beta-1,2-gluca 26.6 25 0.00054 33.5 0.4 21 108-128 364-384 (588)
173 cd03289 ABCC_CFTR2 The CFTR su 26.5 25 0.00055 31.1 0.4 15 108-122 33-47 (275)
174 cd00880 Era_like Era (E. coli 26.5 23 0.00049 24.8 0.1 14 110-123 1-14 (163)
175 PRK12289 GTPase RsgA; Reviewed 26.5 26 0.00056 32.8 0.5 38 76-122 152-189 (352)
176 PRK15093 antimicrobial peptide 26.4 25 0.00055 31.6 0.4 19 108-126 36-54 (330)
177 smart00382 AAA ATPases associa 26.4 26 0.00057 23.8 0.4 17 109-125 6-22 (148)
178 cd01854 YjeQ_engC YjeQ/EngC. 26.4 25 0.00055 31.1 0.4 40 77-125 142-181 (287)
179 cd04163 Era Era subfamily. Er 26.3 27 0.00058 25.1 0.5 12 108-119 6-17 (168)
180 PRK11231 fecE iron-dicitrate t 26.3 26 0.00056 29.6 0.4 19 108-126 31-49 (255)
181 COG0218 Predicted GTPase [Gene 26.2 26 0.00056 31.4 0.4 13 108-120 27-39 (200)
182 cd03217 ABC_FeS_Assembly ABC-t 26.2 26 0.00057 28.7 0.4 19 109-127 30-48 (200)
183 PRK15112 antimicrobial peptide 26.1 26 0.00056 30.1 0.4 17 108-124 42-58 (267)
184 cd03249 ABC_MTABC3_MDL1_MDL2 M 26.1 27 0.00059 28.9 0.5 18 109-126 33-50 (238)
185 PRK03846 adenylylsulfate kinas 26.1 26 0.00057 28.7 0.4 14 107-120 26-39 (198)
186 PRK10575 iron-hydroxamate tran 26.1 26 0.00057 29.9 0.4 18 109-126 41-58 (265)
187 PRK14239 phosphate transporter 26.0 26 0.00057 29.2 0.4 18 108-125 34-51 (252)
188 TIGR03864 PQQ_ABC_ATP ABC tran 25.9 27 0.00058 29.1 0.4 17 109-125 31-47 (236)
189 cd01866 Rab2 Rab2 subfamily. 25.9 27 0.00058 26.9 0.4 12 108-119 7-18 (168)
190 cd03230 ABC_DR_subfamily_A Thi 25.9 27 0.00058 27.9 0.4 19 108-126 29-47 (173)
191 PRK10908 cell division protein 25.9 27 0.00058 28.7 0.4 17 109-125 32-48 (222)
192 TIGR02324 CP_lyasePhnL phospho 25.9 27 0.00058 28.7 0.4 19 108-126 37-55 (224)
193 cd03300 ABC_PotA_N PotA is an 25.8 27 0.00058 29.1 0.4 17 108-124 29-45 (232)
194 PRK13541 cytochrome c biogenes 25.8 27 0.00058 28.3 0.4 18 109-126 30-47 (195)
195 cd03256 ABC_PhnC_transporter A 25.6 27 0.00059 28.7 0.4 19 108-126 30-48 (241)
196 cd00267 ABC_ATPase ABC (ATP-bi 25.6 28 0.0006 27.1 0.4 17 109-125 29-45 (157)
197 PF06709 DUF1196: Protein of u 25.5 18 0.00038 26.9 -0.6 11 232-242 36-46 (51)
198 PRK14260 phosphate ABC transpo 25.5 27 0.00059 29.6 0.4 19 108-126 36-54 (259)
199 PF13671 AAA_33: AAA domain; P 25.5 26 0.00057 26.0 0.3 14 110-123 4-17 (143)
200 PRK10771 thiQ thiamine transpo 25.4 27 0.0006 28.9 0.4 18 108-125 28-45 (232)
201 TIGR03375 type_I_sec_LssB type 25.4 27 0.00058 34.0 0.4 15 108-122 494-508 (694)
202 PRK11701 phnK phosphonate C-P 25.4 28 0.0006 29.5 0.4 18 109-126 36-53 (258)
203 PRK14248 phosphate ABC transpo 25.4 27 0.00059 29.8 0.4 19 108-126 50-68 (268)
204 PRK14242 phosphate transporter 25.4 28 0.0006 29.2 0.4 18 109-126 36-53 (253)
205 cd03229 ABC_Class3 This class 25.3 28 0.0006 27.9 0.4 18 109-126 30-47 (178)
206 PRK05480 uridine/cytidine kina 25.3 28 0.0006 28.4 0.4 14 108-121 9-22 (209)
207 COG1125 OpuBA ABC-type proline 25.3 24 0.00052 33.9 0.0 18 108-125 30-47 (309)
208 PRK11124 artP arginine transpo 25.2 28 0.0006 29.0 0.4 17 109-125 32-48 (242)
209 cd03298 ABC_ThiQ_thiamine_tran 25.2 32 0.00069 28.0 0.7 18 108-125 27-44 (211)
210 cd04145 M_R_Ras_like M-Ras/R-R 25.1 28 0.00061 25.9 0.4 15 108-122 5-19 (164)
211 PRK14240 phosphate transporter 25.1 28 0.00061 29.1 0.4 19 108-126 32-50 (250)
212 cd01869 Rab1_Ypt1 Rab1/Ypt1 su 25.0 29 0.00062 26.3 0.4 12 108-119 5-16 (166)
213 cd04127 Rab27A Rab27a subfamil 25.0 29 0.00062 26.6 0.4 13 108-120 7-19 (180)
214 PRK13645 cbiO cobalt transport 25.0 28 0.00061 30.2 0.4 18 108-125 40-57 (289)
215 PF13476 AAA_23: AAA domain; P 25.0 30 0.00065 26.5 0.5 13 110-122 24-36 (202)
216 TIGR00968 3a0106s01 sulfate AB 24.9 29 0.00062 29.1 0.4 18 108-125 29-46 (237)
217 cd03290 ABCC_SUR1_N The SUR do 24.9 32 0.0007 28.2 0.7 20 108-127 30-49 (218)
218 PRK13639 cbiO cobalt transport 24.9 28 0.00062 30.0 0.4 19 108-126 31-49 (275)
219 cd04156 ARLTS1 ARLTS1 subfamil 24.8 30 0.00065 25.8 0.5 13 109-121 3-15 (160)
220 cd03238 ABC_UvrA The excision 24.8 29 0.00062 29.0 0.4 17 109-125 25-41 (176)
221 cd03215 ABC_Carb_Monos_II This 24.7 29 0.00063 27.9 0.4 18 109-126 30-47 (182)
222 PRK11629 lolD lipoprotein tran 24.7 29 0.00063 28.8 0.4 18 109-126 39-56 (233)
223 PRK10253 iron-enterobactin tra 24.7 29 0.00062 29.7 0.4 18 109-126 37-54 (265)
224 PRK10895 lipopolysaccharide AB 24.7 29 0.00063 28.9 0.4 19 108-126 32-50 (241)
225 TIGR03005 ectoine_ehuA ectoine 24.6 29 0.00063 29.1 0.4 18 108-125 29-46 (252)
226 PF13481 AAA_25: AAA domain; P 24.6 28 0.00061 27.4 0.3 14 109-122 36-49 (193)
227 PRK10619 histidine/lysine/argi 24.6 29 0.00063 29.3 0.4 18 109-126 35-52 (257)
228 cd01849 YlqF_related_GTPase Yl 24.5 33 0.00072 26.8 0.7 48 76-124 62-119 (155)
229 PRK09473 oppD oligopeptide tra 24.5 26 0.00057 31.7 0.1 21 108-128 45-65 (330)
230 TIGR03597 GTPase_YqeH ribosome 24.5 30 0.00065 31.8 0.5 39 76-119 130-168 (360)
231 PRK14267 phosphate ABC transpo 24.4 29 0.00063 29.1 0.4 19 109-127 34-52 (253)
232 PRK14273 phosphate ABC transpo 24.4 30 0.00064 29.1 0.4 20 108-127 36-55 (254)
233 PRK13647 cbiO cobalt transport 24.4 29 0.00062 30.1 0.3 20 108-127 34-53 (274)
234 PF13401 AAA_22: AAA domain; P 24.4 24 0.00052 25.7 -0.1 18 110-127 9-26 (131)
235 cd03297 ABC_ModC_molybdenum_tr 24.3 30 0.00065 28.3 0.4 17 108-124 26-42 (214)
236 cd01372 KISc_KIF4 Kinesin moto 24.2 35 0.00076 30.5 0.9 12 111-122 80-91 (341)
237 TIGR01189 ccmA heme ABC export 24.2 30 0.00065 28.0 0.4 17 109-125 30-46 (198)
238 PRK13646 cbiO cobalt transport 24.2 30 0.00064 30.2 0.4 19 108-126 36-54 (286)
239 PRK13900 type IV secretion sys 24.2 76 0.0017 29.3 3.1 90 24-124 58-179 (332)
240 PRK13632 cbiO cobalt transport 24.2 30 0.00065 29.8 0.4 17 109-125 39-55 (271)
241 PRK09493 glnQ glutamine ABC tr 24.1 30 0.00066 28.7 0.4 18 109-126 31-48 (240)
242 cd03221 ABCF_EF-3 ABCF_EF-3 E 24.0 31 0.00067 27.2 0.4 20 109-128 30-49 (144)
243 cd02023 UMPK Uridine monophosp 23.9 31 0.00067 27.9 0.4 14 110-123 4-17 (198)
244 TIGR03411 urea_trans_UrtD urea 23.9 31 0.00066 28.7 0.4 19 108-126 31-49 (242)
245 PRK13547 hmuV hemin importer A 23.9 30 0.00066 30.2 0.4 19 109-127 31-49 (272)
246 TIGR01360 aden_kin_iso1 adenyl 23.8 32 0.00069 26.8 0.5 17 109-125 7-23 (188)
247 cd00009 AAA The AAA+ (ATPases 23.8 32 0.0007 23.9 0.5 20 107-126 21-40 (151)
248 cd03240 ABC_Rad50 The catalyti 23.7 50 0.0011 27.6 1.6 16 109-124 26-41 (204)
249 cd01862 Rab7 Rab7 subfamily. 23.7 31 0.00068 25.8 0.4 15 108-122 3-17 (172)
250 PRK11545 gntK gluconate kinase 23.7 27 0.00058 28.2 0.0 13 111-123 1-13 (163)
251 PRK13159 cytochrome c-type bio 23.7 1E+02 0.0022 26.9 3.5 33 57-89 91-129 (155)
252 PRK13543 cytochrome c biogenes 23.6 31 0.00068 28.4 0.4 18 109-126 41-58 (214)
253 cd00157 Rho Rho (Ras homology) 23.5 32 0.0007 25.7 0.4 12 108-119 3-14 (171)
254 cd03220 ABC_KpsT_Wzt ABC_KpsT_ 23.5 31 0.00068 28.8 0.4 18 109-126 52-69 (224)
255 PRK09580 sufC cysteine desulfu 23.5 32 0.00068 28.6 0.4 21 108-128 30-50 (248)
256 PRK11022 dppD dipeptide transp 23.5 30 0.00065 31.3 0.3 20 108-127 36-55 (326)
257 PRK13548 hmuV hemin importer A 23.4 32 0.00068 29.4 0.4 19 108-126 31-49 (258)
258 TIGR02769 nickel_nikE nickel i 23.3 32 0.00069 29.4 0.4 19 108-126 40-58 (265)
259 COG3839 MalK ABC-type sugar tr 23.3 19 0.00042 34.1 -0.9 18 108-125 32-49 (338)
260 PLN03073 ABC transporter F fam 23.3 32 0.00069 35.0 0.5 19 109-127 207-225 (718)
261 cd07386 MPP_DNA_pol_II_small_a 23.3 1.1E+02 0.0023 26.0 3.5 20 69-88 76-95 (243)
262 PRK14262 phosphate ABC transpo 23.2 32 0.0007 28.7 0.4 19 109-127 33-51 (250)
263 TIGR03719 ABC_ABC_ChvD ATP-bin 23.2 32 0.0007 32.8 0.5 18 109-126 35-52 (552)
264 PRK14247 phosphate ABC transpo 23.1 32 0.0007 28.8 0.4 20 108-127 32-51 (250)
265 TIGR03598 GTPase_YsxC ribosome 23.1 33 0.00072 27.0 0.5 14 107-120 20-33 (179)
266 PRK14270 phosphate ABC transpo 23.1 32 0.0007 28.8 0.4 19 108-126 33-51 (251)
267 TIGR02203 MsbA_lipidA lipid A 23.1 30 0.00065 32.3 0.2 15 110-124 363-377 (571)
268 PF01580 FtsK_SpoIIIE: FtsK/Sp 23.0 25 0.00055 28.5 -0.2 18 108-125 41-58 (205)
269 cd00878 Arf_Arl Arf (ADP-ribos 23.0 40 0.00087 25.2 0.9 12 108-119 2-13 (158)
270 PRK14255 phosphate ABC transpo 22.9 33 0.00071 28.7 0.4 19 108-126 34-52 (252)
271 PRK11300 livG leucine/isoleuci 22.9 33 0.00071 28.7 0.4 18 109-126 35-52 (255)
272 cd01371 KISc_KIF3 Kinesin moto 22.9 38 0.00083 30.5 0.8 13 111-123 88-100 (333)
273 PRK13540 cytochrome c biogenes 22.8 33 0.00072 27.9 0.4 17 110-126 32-48 (200)
274 cd03275 ABC_SMC1_euk Eukaryoti 22.7 34 0.00074 29.1 0.5 10 110-119 27-36 (247)
275 PRK11264 putative amino-acid A 22.7 33 0.00072 28.6 0.4 18 108-125 32-49 (250)
276 cd03222 ABC_RNaseL_inhibitor T 22.7 30 0.00066 28.9 0.2 19 108-126 28-46 (177)
277 PRK11831 putative ABC transpor 22.7 33 0.00072 29.4 0.4 18 109-126 37-54 (269)
278 PTZ00132 GTP-binding nuclear p 22.7 33 0.00073 27.8 0.4 15 108-122 12-26 (215)
279 TIGR00958 3a01208 Conjugate Tr 22.6 33 0.00071 34.0 0.4 16 108-123 510-525 (711)
280 cd01376 KISc_KID_like Kinesin 22.6 40 0.00086 30.2 0.9 13 111-123 87-99 (319)
281 TIGR00929 VirB4_CagE type IV s 22.5 27 0.00059 34.1 -0.1 17 108-124 437-453 (785)
282 PRK07261 topology modulation p 22.5 35 0.00075 27.8 0.5 11 109-119 4-14 (171)
283 cd05721 IgV_CTLA-4 Immunoglobu 22.5 4.5E+02 0.0097 21.7 7.0 76 31-126 4-80 (115)
284 cd02021 GntK Gluconate kinase 22.5 35 0.00075 26.1 0.4 12 110-121 4-15 (150)
285 cd03248 ABCC_TAP TAP, the Tran 22.4 34 0.00074 28.1 0.4 19 108-126 43-61 (226)
286 PRK13649 cbiO cobalt transport 22.3 34 0.00074 29.4 0.4 18 109-126 37-54 (280)
287 PRK11247 ssuB aliphatic sulfon 22.3 34 0.00074 29.7 0.4 19 108-126 41-59 (257)
288 PRK14252 phosphate ABC transpo 22.3 34 0.00074 29.1 0.4 17 109-125 46-62 (265)
289 TIGR00972 3a0107s01c2 phosphat 22.3 34 0.00074 28.6 0.4 20 108-127 30-49 (247)
290 cd03276 ABC_SMC6_euk Eukaryoti 22.3 55 0.0012 27.4 1.6 14 109-122 25-38 (198)
291 cd01863 Rab18 Rab18 subfamily. 22.2 35 0.00076 25.5 0.4 12 109-120 4-15 (161)
292 PRK13633 cobalt transporter AT 22.1 35 0.00075 29.6 0.4 19 108-126 39-57 (280)
293 PRK09984 phosphonate/organopho 22.1 35 0.00075 29.0 0.4 20 108-127 33-52 (262)
294 PF07887 Calmodulin_bind: Calm 22.1 93 0.002 29.6 3.2 33 95-127 91-125 (299)
295 PRK13636 cbiO cobalt transport 22.1 35 0.00075 29.7 0.4 18 108-125 35-52 (283)
296 PRK13637 cbiO cobalt transport 22.0 34 0.00074 29.9 0.4 18 109-126 37-54 (287)
297 PRK10247 putative ABC transpor 22.0 35 0.00077 28.3 0.4 18 109-126 37-54 (225)
298 cd04140 ARHI_like ARHI subfami 21.9 35 0.00076 26.1 0.4 15 108-122 4-18 (165)
299 cd01364 KISc_BimC_Eg5 Kinesin 21.9 42 0.0009 30.3 0.9 19 105-123 81-100 (352)
300 PF13191 AAA_16: AAA ATPase do 21.9 26 0.00057 26.7 -0.3 19 106-124 25-43 (185)
301 cd01895 EngA2 EngA2 subfamily. 21.9 37 0.00079 24.9 0.4 14 109-122 6-19 (174)
302 PRK11248 tauB taurine transpor 21.8 35 0.00077 29.2 0.4 17 109-125 31-47 (255)
303 cd03299 ABC_ModC_like Archeal 21.8 36 0.00077 28.5 0.4 17 109-125 29-45 (235)
304 COG1123 ATPase components of v 21.8 33 0.00072 34.7 0.3 19 108-126 38-56 (539)
305 PRK14256 phosphate ABC transpo 21.7 36 0.00077 28.6 0.4 18 108-125 33-50 (252)
306 TIGR01288 nodI ATP-binding ABC 21.6 36 0.00078 29.9 0.4 19 108-126 33-51 (303)
307 cd04157 Arl6 Arl6 subfamily. 21.6 38 0.00082 25.1 0.5 13 109-121 3-15 (162)
308 cd01878 HflX HflX subfamily. 21.6 36 0.00079 27.1 0.4 13 108-120 44-56 (204)
309 PRK14244 phosphate ABC transpo 21.6 36 0.00079 28.6 0.4 16 110-125 36-51 (251)
310 PRK14268 phosphate ABC transpo 21.5 36 0.00079 28.8 0.4 19 109-127 42-60 (258)
311 cd03233 ABC_PDR_domain1 The pl 21.5 37 0.00079 28.0 0.4 21 109-129 37-57 (202)
312 TIGR03771 anch_rpt_ABC anchore 21.5 36 0.00078 28.3 0.4 17 109-125 10-26 (223)
313 cd04154 Arl2 Arl2 subfamily. 21.5 38 0.00082 26.2 0.5 12 108-119 17-28 (173)
314 cd03223 ABCD_peroxisomal_ALDP 21.4 37 0.0008 27.2 0.4 19 108-126 30-48 (166)
315 PRK15079 oligopeptide ABC tran 21.3 36 0.00079 30.9 0.4 19 108-126 50-68 (331)
316 PRK14265 phosphate ABC transpo 21.2 37 0.00081 29.4 0.4 19 108-126 49-67 (274)
317 cd03295 ABC_OpuCA_Osmoprotecti 21.2 38 0.00081 28.3 0.4 18 109-126 31-48 (242)
318 cd03244 ABCC_MRP_domain2 Domai 21.1 38 0.00082 27.6 0.4 18 109-126 34-51 (221)
319 PRK11308 dppF dipeptide transp 21.0 37 0.0008 30.8 0.4 19 108-126 44-62 (327)
320 PRK09544 znuC high-affinity zi 21.0 38 0.00082 29.1 0.4 19 108-126 33-51 (251)
321 TIGR02982 heterocyst_DevA ABC 20.9 38 0.00083 27.9 0.4 18 109-126 35-52 (220)
322 cd03271 ABC_UvrA_II The excisi 20.9 39 0.00085 30.2 0.5 13 110-122 26-38 (261)
323 cd04125 RabA_like RabA-like su 20.9 38 0.00083 26.6 0.4 11 109-119 4-14 (188)
324 PRK14272 phosphate ABC transpo 20.9 38 0.00083 28.2 0.4 19 109-127 34-52 (252)
325 PRK15134 microcin C ABC transp 20.8 37 0.00081 32.0 0.4 20 108-127 38-57 (529)
326 cd04118 Rab24 Rab24 subfamily. 20.7 39 0.00084 26.5 0.4 11 109-119 4-14 (193)
327 cd01897 NOG NOG1 is a nucleola 20.7 46 0.00099 25.0 0.8 12 108-119 3-14 (168)
328 cd01374 KISc_CENP_E Kinesin mo 20.7 45 0.00097 29.7 0.8 22 102-123 70-92 (321)
329 TIGR03740 galliderm_ABC gallid 20.7 39 0.00084 27.8 0.4 17 109-125 30-46 (223)
330 TIGR02314 ABC_MetN D-methionin 20.7 38 0.00083 31.2 0.4 18 108-125 34-51 (343)
331 PRK15056 manganese/iron transp 20.7 39 0.00084 29.1 0.4 17 109-125 37-53 (272)
332 PRK13650 cbiO cobalt transport 20.7 39 0.00084 29.4 0.4 18 109-126 37-54 (279)
333 PRK14237 phosphate transporter 20.6 39 0.00085 29.0 0.4 20 108-127 49-68 (267)
334 COG0488 Uup ATPase components 20.6 38 0.00082 33.6 0.4 18 109-126 33-50 (530)
335 cd04136 Rap_like Rap-like subf 20.6 40 0.00087 25.0 0.4 12 109-120 5-16 (163)
336 PRK14235 phosphate transporter 20.5 39 0.00086 29.0 0.4 19 109-127 49-67 (267)
337 cd04151 Arl1 Arl1 subfamily. 20.4 41 0.00089 25.4 0.5 11 109-119 3-13 (158)
338 cd01365 KISc_KIF1A_KIF1B Kines 20.4 48 0.001 30.1 1.0 13 111-123 95-107 (356)
339 cd03268 ABC_BcrA_bacitracin_re 20.4 40 0.00087 27.3 0.4 16 110-125 31-46 (208)
340 cd03237 ABC_RNaseL_inhibitor_d 20.4 40 0.00086 29.1 0.4 18 109-126 29-46 (246)
341 PRK14259 phosphate ABC transpo 20.3 40 0.00086 29.1 0.4 18 109-126 43-60 (269)
342 PRK14266 phosphate ABC transpo 20.3 40 0.00087 28.2 0.4 17 109-125 33-49 (250)
343 TIGR02322 phosphon_PhnN phosph 20.2 41 0.00088 26.5 0.4 14 110-123 6-19 (179)
344 cd04101 RabL4 RabL4 (Rab-like4 20.1 47 0.001 24.9 0.7 15 108-122 3-17 (164)
345 PRK10789 putative multidrug tr 20.1 40 0.00087 32.2 0.4 18 108-125 344-361 (569)
346 PRK13643 cbiO cobalt transport 20.0 39 0.00084 29.6 0.3 18 108-125 35-52 (288)
347 TIGR01277 thiQ thiamine ABC tr 20.0 41 0.00089 27.5 0.4 16 108-123 27-42 (213)
348 cd01850 CDC_Septin CDC/Septin. 20.0 41 0.0009 29.8 0.5 12 108-119 7-18 (276)
349 PRK11153 metN DL-methionine tr 20.0 40 0.00087 30.6 0.4 18 109-126 35-52 (343)
No 1
>PF00853 Runt: Runt domain; InterPro: IPR013524 The AML1 gene is rearranged by the t(8;21) translocation in acute myeloid leukemia []. The gene is highly similar to the Drosophila melanogaster segmentation gene runt and to the mouse transcription factor PEBP2 alpha subunit gene []. The region of shared similarity, known as the Runt domain, is responsible for DNA-binding and protein-protein interaction. In addition to the highly-conserved Runt domain, the AML-1 gene product carries a putative ATP-binding site (GRSGRGKS), and has a C-terminal region rich in proline and serine residues. The protein (known as acute myeloid leukemia 1 protein, oncogene AML-1, core-binding factor (CBF), alpha-B subunit, etc.) binds to the core site, 5'-pygpyggt-3', of a number of enhancers and promoters. The protein is a heterodimer of alpha- and beta-subunits. The alpha-subunit binds DNA as a monomer, and appears to have a role in the development of normal hematopoiesis. CBF is a nuclear protein expressed in numerous tissue types, except brain and heart; highest levels have been found to occur in thymus, bone marrow and peripheral blood. This domain occurs towards the N terminus of the proteins in this entry.; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1E50_E 1LJM_A 1CO1_A 1H9D_C 1CMO_A 1EAO_B 1HJC_D 1HJB_F 2J6W_B 1EAN_A ....
Probab=100.00 E-value=4.3e-73 Score=468.34 Aligned_cols=120 Identities=66% Similarity=1.003 Sum_probs=105.9
Q ss_pred hhhhhHHhhcCCCCccccCCCceEEeecCcccccCCCCCcceEEEEeeecCCCeEEEEeecCCCccccccccceeeeccc
Q psy3060 22 ERTLDSLLAEHPGELTRTGCPHVVCTVLPTHWRSNKTLPVAFKVVALGDVMDGTIVTIRAGNDENYCGELRNCTAVMKNQ 101 (268)
Q Consensus 22 er~l~~~l~eh~geLV~T~sP~~lCs~LP~HWRsNKtLP~aFkVvaLg~VpDGT~Vtv~AGNDEN~~AELRN~tAvMKNq 101 (268)
||+|.|+|+|||||||+||||+|+||+||+||||||+||.+|||||||+|||||+|||+|||||||||||||++|+||||
T Consensus 1 er~~~~~l~~~~~~lv~T~sP~~lcs~LP~HWR~NKsLP~~FkVvalg~V~DGT~Vtv~AGNDEn~~aElRN~tavmknq 80 (135)
T PF00853_consen 1 ERTLHEALAEHPGELVRTDSPNFLCSVLPSHWRSNKSLPVAFKVVALGDVPDGTLVTVMAGNDENYCAELRNATAVMKNQ 80 (135)
T ss_dssp ---HHHHHHHSTCCEEECSSTTEEEES-TSEEETTSS-SS-EEEEESSS-STTEEEEEEEEESSCSSBBEES-EEEEETT
T ss_pred CccHHHHHHhCCcccccCCCCCEEeecccccccccCCCCCceeEEEEEEcCCCcEEEEEecCCchhhhhhhchhhhhhcc
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeeecceeeeeccCCCceeeceEee-------eeeeeEEee----ecCccc
Q psy3060 102 VAKFNDLRFVGRSGREAEASPKDWV-------GTLIWLIGI----KNKHQQ 141 (268)
Q Consensus 102 VArFNDLRFVGRSGRGKsFtlti~v-------~t~~~~i~v----~~~hrq 141 (268)
|||||||||||||||||||+|||+| +||++|||| ||++|.
T Consensus 81 vA~FnDLRFvGRSGRGKsFtltItv~t~PpqvAty~~AIKVTVDGPRePR~ 131 (135)
T PF00853_consen 81 VARFNDLRFVGRSGRGKSFTLTITVFTNPPQVATYHRAIKVTVDGPREPRS 131 (135)
T ss_dssp EEEESS-EECST-TTTSEEEEEEEE-SSS-EEEEECCEEEEESS-SSCCG-
T ss_pred cccccccccccccCCccceEEEEEEeCCCchHHhheeeEEEEecCCCCCcc
Confidence 9999999999999999999999996 889999999 555554
No 2
>KOG3982|consensus
Probab=100.00 E-value=5.5e-73 Score=530.35 Aligned_cols=154 Identities=56% Similarity=0.811 Sum_probs=144.8
Q ss_pred HHHhhhhhhHHhhcCCCCccccCCCceEEeecCcccccCCCCCcceEEEEeeecCCCeEEEEeecCCCccccccccceee
Q psy3060 18 EVLAERTLDSLLAEHPGELTRTGCPHVVCTVLPTHWRSNKTLPVAFKVVALGDVMDGTIVTIRAGNDENYCGELRNCTAV 97 (268)
Q Consensus 18 ~~~~er~l~~~l~eh~geLV~T~sP~~lCs~LP~HWRsNKtLP~aFkVvaLg~VpDGT~Vtv~AGNDEN~~AELRN~tAv 97 (268)
+.+.||+|+|+|+|||||||+||||+|||++||+|||||||||++|||||||||||||+||||||||||||||||||+|+
T Consensus 94 mt~~~rt~~~~laehpgeLvrT~SPn~lcs~LP~HWRsNKtlp~aFkVvaLgdVpDgT~Vti~aGNDEnyc~ElRN~tA~ 173 (475)
T KOG3982|consen 94 MTLVFRTVVEFLAEHPGELVRTSSPNFLCSVLPTHWRSNKTLPVAFKVVALGDVPDGTLVTIMAGNDENYCAELRNCTAV 173 (475)
T ss_pred hhhhHHHHHHHHHhCccceeecCCCceeeecCcchhccCCcccceeEEEEecccCCCcEEEEEecCCcchhHHhhhhHHH
Confidence 56799999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eccceeeecceeeeeccCCCceeeceEee-------eeeeeEEee----ecCcc-cchhhh-hhhhhhhhhhhHHHHHhh
Q psy3060 98 MKNQVAKFNDLRFVGRSGREAEASPKDWV-------GTLIWLIGI----KNKHQ-QYEIEI-SFLINQITASISELLRMY 164 (268)
Q Consensus 98 MKNqVArFNDLRFVGRSGRGKsFtlti~v-------~t~~~~i~v----~~~hr-q~~~~~-~~~~~~~s~~lsel~r~~ 164 (268)
|||||||||||||||||||||||||||+| +||+++||| ||+.| +|..+. .....+|.+++++++|+.
T Consensus 174 mknQVAkFNDLRFVGRSGRGKsFtLTIti~TnP~qvATy~kaIKVTVDGPRepRr~K~~~~~k~~~~~~~~r~~~~~~~~ 253 (475)
T KOG3982|consen 174 MKNQVAKFNDLRFVGRSGRGKSFTLTITIFTNPPQVATYHKAIKVTVDGPREPRRSKLSDQTKPQAEQFPDRFGDLERLP 253 (475)
T ss_pred HHhhhhhhccceeecccCCCcceEEEEEEecCCcceeeeeceEEEeccCCCccccccccccccCCccccccccCchhhcC
Confidence 99999999999999999999999999996 889999999 78888 766554 223358999999999999
Q ss_pred hhhcccc
Q psy3060 165 EKTLRLG 171 (268)
Q Consensus 165 ~~~mr~~ 171 (268)
...||++
T Consensus 254 ~~pm~~~ 260 (475)
T KOG3982|consen 254 GPPMRVT 260 (475)
T ss_pred CCCcccC
Confidence 9999997
No 3
>cd04159 Arl10_like Arl10-like subfamily. Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved.
Probab=67.99 E-value=2.5 Score=30.43 Aligned_cols=16 Identities=13% Similarity=0.229 Sum_probs=12.8
Q ss_pred ceeeeeccCCCceeec
Q psy3060 107 DLRFVGRSGREAEASP 122 (268)
Q Consensus 107 DLRFVGRSGRGKsFtl 122 (268)
|+-++|++|.|||=-+
T Consensus 1 ~i~i~G~~~~GKssl~ 16 (159)
T cd04159 1 EITLVGLQNSGKTTLV 16 (159)
T ss_pred CEEEEcCCCCCHHHHH
Confidence 5678999999998443
No 4
>cd01858 NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protein gene 1) has been shown to localize in the nucleolus and nucleolar organizers in all cell types analyzed, which is indicative of a function in ribosomal assembly. NGP-1 and its homologs show a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with NKXD motif) are relocated to the N terminus.
Probab=64.94 E-value=2.5 Score=32.99 Aligned_cols=13 Identities=15% Similarity=0.243 Sum_probs=11.0
Q ss_pred eeeccCCCceeec
Q psy3060 110 FVGRSGREAEASP 122 (268)
Q Consensus 110 FVGRSGRGKsFtl 122 (268)
|+|+||.|||=-+
T Consensus 107 ~~G~~nvGKStli 119 (157)
T cd01858 107 FIGYPNVGKSSII 119 (157)
T ss_pred EEeCCCCChHHHH
Confidence 8999999998543
No 5
>PRK14238 phosphate transporter ATP-binding protein; Provisional
Probab=56.92 E-value=11 Score=32.52 Aligned_cols=52 Identities=17% Similarity=0.227 Sum_probs=30.6
Q ss_pred eEEEEeecCCCccc-------cccccceeeeccceeeeccee----------eeeccCCCceeeceEeee
Q psy3060 75 TIVTIRAGNDENYC-------GELRNCTAVMKNQVAKFNDLR----------FVGRSGREAEASPKDWVG 127 (268)
Q Consensus 75 T~Vtv~AGNDEN~~-------AELRN~tAvMKNqVArFNDLR----------FVGRSGRGKsFtlti~v~ 127 (268)
|+|-|...|+|..- =+++|-+-...+. .-|+|+- .+|.||.|||=-|.+..+
T Consensus 4 ~~~~~~~~~~~~~~~~~~~~~l~~~~l~~~~~~~-~il~~vsl~i~~Ge~~~I~G~nGsGKSTLl~~i~G 72 (271)
T PRK14238 4 TVVNVQVKNEEKIETAPKKVVFDTQNLNLWYGED-HALKNINLDIHENEVTAIIGPSGCGKSTYIKTLNR 72 (271)
T ss_pred eEEEEEecchhhhccCCCceEEEEeeeEEEECCc-ceeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHHh
Confidence 67777777777532 2445544433322 2345543 589999999965555443
No 6
>PF12846 AAA_10: AAA-like domain
Probab=56.08 E-value=3.5 Score=33.57 Aligned_cols=16 Identities=19% Similarity=0.410 Sum_probs=13.6
Q ss_pred eeeccCCCceeeceEe
Q psy3060 110 FVGRSGREAEASPKDW 125 (268)
Q Consensus 110 FVGRSGRGKsFtlti~ 125 (268)
++|.+|.|||+.+.-.
T Consensus 6 i~G~tGsGKT~~~~~l 21 (304)
T PF12846_consen 6 ILGKTGSGKTTLLKNL 21 (304)
T ss_pred EECCCCCcHHHHHHHH
Confidence 6899999999988744
No 7
>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1). This represents Arabidoposis protein AIG1 that appears to be involved in plant resistance to bacteria. The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 exhibits RPS2- and avrRpt1-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2. This subfamily also includes IAN-4 protein, which has GTP-binding activity and shares sequence homology with a novel family of putative GTP-binding proteins: the immuno-associated nucleotide (IAN) family. The evolutionary conservation of the IAN family provides a unique example of a plant pathogen response gene conserved in animals. The IAN/IMAP subfamily has been proposed to regulate apoptosis in vertebrates and angiosperm plants, particularly in relation to cancer, diabetes, and infections. The human IAN genes were renamed GIMAP (GTPase of the immunity associated proteins).
Probab=55.66 E-value=4.7 Score=32.58 Aligned_cols=15 Identities=33% Similarity=0.567 Sum_probs=11.8
Q ss_pred eeeeeccCCCceeec
Q psy3060 108 LRFVGRSGREAEASP 122 (268)
Q Consensus 108 LRFVGRSGRGKsFtl 122 (268)
+=+|||+|.|||=.+
T Consensus 3 i~lvG~~g~GKSsl~ 17 (196)
T cd01852 3 LVLVGKTGAGKSATG 17 (196)
T ss_pred EEEECCCCCCHHHHH
Confidence 347999999998544
No 8
>TIGR03729 acc_ester putative phosphoesterase. Members of this protein family belong to the larger family pfam00149 (calcineurin-like phosphoesterase), a family largely defined by small motifs of metal-chelating residues. The subfamily in this model shows a good but imperfect co-occurrence in species with domain TIGR03715 that defines a novel class of signal peptide typical of the accessory secretory system.
Probab=53.76 E-value=12 Score=31.52 Aligned_cols=42 Identities=26% Similarity=0.482 Sum_probs=28.2
Q ss_pred CeEEEEeecCCCcc----ccccccc--eeeeccceeee--cceeeeeccC
Q psy3060 74 GTIVTIRAGNDENY----CGELRNC--TAVMKNQVAKF--NDLRFVGRSG 115 (268)
Q Consensus 74 GT~Vtv~AGNDEN~----~AELRN~--tAvMKNqVArF--NDLRFVGRSG 115 (268)
+..|.+-.||-|.+ ..+++.. .-.+.+....| +++||+|=.|
T Consensus 61 ~~pv~~v~GNHD~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~ig~~g 110 (239)
T TIGR03729 61 GIKVTFNAGNHDMLKDLTYEEIESNDSPLYLHNRFIDIPNTQWRIIGNNG 110 (239)
T ss_pred CCcEEEECCCCCCCCCCCHHHHHhccchhhhcccccccCCCceEEEeecc
Confidence 45677889999975 2335542 12456666677 8999999664
No 9
>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=53.56 E-value=5.5 Score=29.67 Aligned_cols=20 Identities=25% Similarity=0.380 Sum_probs=15.1
Q ss_pred eeeeeccCCCceeeceEeee
Q psy3060 108 LRFVGRSGREAEASPKDWVG 127 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v~ 127 (268)
+-++|++|.|||=-|.+..+
T Consensus 14 ~~i~G~nGsGKStLl~~l~g 33 (137)
T PF00005_consen 14 VAIVGPNGSGKSTLLKALAG 33 (137)
T ss_dssp EEEEESTTSSHHHHHHHHTT
T ss_pred EEEEccCCCccccceeeecc
Confidence 35799999999976665543
No 10
>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]
Probab=53.50 E-value=12 Score=38.36 Aligned_cols=51 Identities=29% Similarity=0.293 Sum_probs=35.6
Q ss_pred EEEeecCCCccccccccceeeeccc--eeeecceeeeeccCCCceeeceEeeeeeee---EEee
Q psy3060 77 VTIRAGNDENYCGELRNCTAVMKNQ--VAKFNDLRFVGRSGREAEASPKDWVGTLIW---LIGI 135 (268)
Q Consensus 77 Vtv~AGNDEN~~AELRN~tAvMKNq--VArFNDLRFVGRSGRGKsFtlti~v~t~~~---~i~v 135 (268)
|+.+=+.|++ .-|+|..=.+++. || .|||||+|||==+.+..+-|.+ .|.+
T Consensus 477 vsf~y~~~~~--~vL~~isL~I~~Ge~va------IvG~SGsGKSTL~KLL~gly~p~~G~I~~ 532 (709)
T COG2274 477 VSFRYGPDDP--PVLEDLSLEIPPGEKVA------IVGRSGSGKSTLLKLLLGLYKPQQGRILL 532 (709)
T ss_pred EEEEeCCCCc--chhhceeEEeCCCCEEE------EECCCCCCHHHHHHHHhcCCCCCCceEEE
Confidence 5566666655 4566666666666 55 6999999999777777766666 5655
No 11
>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=52.95 E-value=21 Score=31.81 Aligned_cols=53 Identities=21% Similarity=0.211 Sum_probs=35.2
Q ss_pred hhHHhhcCCCCccccCCCceEEeecCcccccCCCCCcceEEEEeee--cCCCe-EEEEeecCCCccc
Q psy3060 25 LDSLLAEHPGELTRTGCPHVVCTVLPTHWRSNKTLPVAFKVVALGD--VMDGT-IVTIRAGNDENYC 88 (268)
Q Consensus 25 l~~~l~eh~geLV~T~sP~~lCs~LP~HWRsNKtLP~aFkVvaLg~--VpDGT-~Vtv~AGNDEN~~ 88 (268)
+.+.++...|.-+-.++|.+-+. || ...+|-+.++ .+.|+ .++|+--+..+.+
T Consensus 42 ~~~~l~~~~~~~l~~~~p~~~~~-l~----------~g~Rv~~~~~p~~~~~~~~i~IRk~~~~~~s 97 (308)
T TIGR02788 42 LARAIASFSKQSISEENPILSAT-LP----------GGERVQIVIPPACENDTVSITIRKPSLVDFS 97 (308)
T ss_pred HHHHHHHHhCCcccCCCceEEEE-CC----------CCeEEEEECCCcccCCCceEEEECCCCCCCC
Confidence 34445566676677799988877 34 4457766653 45676 8889887766654
No 12
>cd01856 YlqF YlqF. Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. The YlqF subfamily is represented in a phylogenetically diverse array of bacteria (including gram-positive bacteria, proteobacteria, Synechocystis, Borrelia, and Thermotoga) and in all eukaryotes.
Probab=52.93 E-value=5.2 Score=31.86 Aligned_cols=45 Identities=11% Similarity=0.127 Sum_probs=26.4
Q ss_pred eEEEEeecCCCccccccccceeee-----ccceeeec----ceeeeeccCCCcee
Q psy3060 75 TIVTIRAGNDENYCGELRNCTAVM-----KNQVAKFN----DLRFVGRSGREAEA 120 (268)
Q Consensus 75 T~Vtv~AGNDEN~~AELRN~tAvM-----KNqVArFN----DLRFVGRSGRGKsF 120 (268)
..+.++|-++++ ..||++....+ ++.-+++. .+.++|+||.|||=
T Consensus 77 ~vi~iSa~~~~g-i~~L~~~l~~~l~~~~~~~~~~~~~~~~~~~~~G~~~vGKst 130 (171)
T cd01856 77 KVLFVNAKSGKG-VKKLLKAAKKLLKDIEKLKAKGLLPRGIRAMVVGIPNVGKST 130 (171)
T ss_pred eEEEEECCCccc-HHHHHHHHHHHHHHHhhhhhcccCCCCeEEEEECCCCCCHHH
Confidence 356778777665 45565543332 01111111 37899999999974
No 13
>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A ....
Probab=49.83 E-value=6.8 Score=28.66 Aligned_cols=12 Identities=17% Similarity=0.401 Sum_probs=10.3
Q ss_pred eeeeeccCCCce
Q psy3060 108 LRFVGRSGREAE 119 (268)
Q Consensus 108 LRFVGRSGRGKs 119 (268)
.-++|++|.|||
T Consensus 2 V~iiG~~~~GKS 13 (116)
T PF01926_consen 2 VAIIGRPNVGKS 13 (116)
T ss_dssp EEEEESTTSSHH
T ss_pred EEEECCCCCCHH
Confidence 348999999998
No 14
>PF13304 AAA_21: AAA domain; PDB: 3QKS_B 1US8_B 1F2U_B 1F2T_B 3QKT_A 1II8_B 3QKR_B 3QKU_A.
Probab=48.03 E-value=6 Score=29.18 Aligned_cols=16 Identities=13% Similarity=0.227 Sum_probs=0.0
Q ss_pred eeeccCCCceeeceEe
Q psy3060 110 FVGRSGREAEASPKDW 125 (268)
Q Consensus 110 FVGRSGRGKsFtlti~ 125 (268)
+||.+|.|||--|...
T Consensus 4 iiG~N~sGKS~il~ai 19 (303)
T PF13304_consen 4 IIGPNGSGKSNILEAI 19 (303)
T ss_dssp ----------------
T ss_pred cccccccccccccccc
Confidence 6899999999766543
No 15
>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=47.83 E-value=10 Score=31.48 Aligned_cols=16 Identities=13% Similarity=0.163 Sum_probs=12.7
Q ss_pred eeeeccCCCceeeceE
Q psy3060 109 RFVGRSGREAEASPKD 124 (268)
Q Consensus 109 RFVGRSGRGKsFtlti 124 (268)
-++|.+|.|||=-|..
T Consensus 32 ~i~G~NGsGKSTll~~ 47 (213)
T cd03279 32 LICGPTGAGKSTILDA 47 (213)
T ss_pred EEECCCCCCHHHHHHH
Confidence 3899999999965554
No 16
>cd01876 YihA_EngB The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and consists of the GTPase domain only (some of the eukaryotic homologs contain an N-terminal extension of about 120 residues that might be involved in organellar targeting). Homologs of yihA are found in most Gram-positive and Gram-negative pathogenic bacteria, with the exception of Mycobacterium tuberculosis. The broad-spectrum nature of YihA and its essentiality for cell viability in bacteria make it an attractive antibacterial target.
Probab=47.72 E-value=8.7 Score=27.82 Aligned_cols=17 Identities=24% Similarity=0.395 Sum_probs=13.3
Q ss_pred ceeeeeccCCCceeece
Q psy3060 107 DLRFVGRSGREAEASPK 123 (268)
Q Consensus 107 DLRFVGRSGRGKsFtlt 123 (268)
|+=++|.+|.|||--+.
T Consensus 1 ~i~l~G~~g~GKTtL~~ 17 (170)
T cd01876 1 EIAFAGRSNVGKSSLIN 17 (170)
T ss_pred CEEEEcCCCCCHHHHHH
Confidence 45689999999986544
No 17
>smart00175 RAB Rab subfamily of small GTPases. Rab GTPases are implicated in vesicle trafficking.
Probab=46.40 E-value=7.9 Score=28.69 Aligned_cols=12 Identities=25% Similarity=0.443 Sum_probs=10.4
Q ss_pred eeeeccCCCcee
Q psy3060 109 RFVGRSGREAEA 120 (268)
Q Consensus 109 RFVGRSGRGKsF 120 (268)
=++|++|.|||=
T Consensus 4 ~v~G~~~~GKTt 15 (164)
T smart00175 4 ILIGDSGVGKSS 15 (164)
T ss_pred EEECCCCCCHHH
Confidence 479999999984
No 18
>PRK13891 conjugal transfer protein TrbE; Provisional
Probab=45.81 E-value=8.5 Score=39.49 Aligned_cols=95 Identities=16% Similarity=0.121 Sum_probs=52.6
Q ss_pred hhHHhhcCCCCcccc--CCCceEEeecCcccccCCCCCcc--eEEEEeeecCCCeEEEEeecCCCcccc---ccccceee
Q psy3060 25 LDSLLAEHPGELTRT--GCPHVVCTVLPTHWRSNKTLPVA--FKVVALGDVMDGTIVTIRAGNDENYCG---ELRNCTAV 97 (268)
Q Consensus 25 l~~~l~eh~geLV~T--~sP~~lCs~LP~HWRsNKtLP~a--FkVvaLg~VpDGT~Vtv~AGNDEN~~A---ELRN~tAv 97 (268)
+..++++..-.+++- ....-+++.||.+|+.|.-.+.- .-+.++- | ...+..|...+.|. +-..+.+.
T Consensus 396 v~~~l~~~g~~~~~e~~~~~~af~a~lPg~~~~~~r~~~itt~n~a~l~--p---~~~~~~G~~~~~~~~~~~~~~~l~~ 470 (852)
T PRK13891 396 VEKAINRLGFAARIETINTMDAYLGSLPGHGVENVRRPLINTMNLADLL--P---TSSIWTGSATAPCPMYPPLSPALMH 470 (852)
T ss_pred HHHHHHhCCcEEEEcccccHHHHHhcCCCCcccccccccccchhhHHhh--h---hccccCCccCCCCcccCCCCCceEE
Confidence 556666664444433 45677889999988765433220 0011111 1 22456676665432 22344444
Q ss_pred ecccee---eec----c---eeeeeccCCCceeeceE
Q psy3060 98 MKNQVA---KFN----D---LRFVGRSGREAEASPKD 124 (268)
Q Consensus 98 MKNqVA---rFN----D---LRFVGRSGRGKsFtlti 124 (268)
+++.-. +|| | .-.+|.||.||||.+.-
T Consensus 471 ~~t~~~~p~~fN~h~~d~gh~~I~G~tGsGKS~l~~~ 507 (852)
T PRK13891 471 CVTVGATPFRLNLHVRDLGHTFMFGPTGAGKSTHLGI 507 (852)
T ss_pred EecCCCCceEEEeEeCCCCeEEEECCCCCCHHHHHHH
Confidence 444332 556 2 35789999999998753
No 19
>cd01881 Obg_like The Obg-like subfamily consists of five well-delimited, ancient subfamilies, namely Obg, DRG, YyaF/YchF, Ygr210, and NOG1. Four of these groups (Obg, DRG, YyaF/YchF, and Ygr210) are characterized by a distinct glycine-rich motif immediately following the Walker B motif (G3 box). Obg/CgtA is an essential gene that is involved in the initiation of sporulation and DNA replication in the bacteria Caulobacter and Bacillus, but its exact molecular role is unknown. Furthermore, several OBG family members possess a C-terminal RNA-binding domain, the TGS domain, which is also present in threonyl-tRNA synthetase and in bacterial guanosine polyphosphatase SpoT. Nog1 is a nucleolar protein that might function in ribosome assembly. The DRG and Nog1 subfamilies are ubiquitous in archaea and eukaryotes, the Ygr210 subfamily is present in archaea and fungi, and the Obg and YyaF/YchF subfamilies are ubiquitous in bacteria and eukaryotes. The Obg/Nog1 and DRG subfamilies appear to
Probab=45.67 E-value=7 Score=29.31 Aligned_cols=10 Identities=20% Similarity=0.255 Sum_probs=9.2
Q ss_pred eeeccCCCce
Q psy3060 110 FVGRSGREAE 119 (268)
Q Consensus 110 FVGRSGRGKs 119 (268)
|+|++|.|||
T Consensus 1 iiG~~~~GKS 10 (176)
T cd01881 1 LVGLPNVGKS 10 (176)
T ss_pred CCCCCCCcHH
Confidence 6899999998
No 20
>COG1132 MdlB ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]
Probab=45.35 E-value=8.1 Score=36.49 Aligned_cols=10 Identities=40% Similarity=0.591 Sum_probs=9.3
Q ss_pred eeeccCCCce
Q psy3060 110 FVGRSGREAE 119 (268)
Q Consensus 110 FVGRSGRGKs 119 (268)
+||+||.|||
T Consensus 360 iVG~sGsGKS 369 (567)
T COG1132 360 IVGPSGSGKS 369 (567)
T ss_pred EECCCCCCHH
Confidence 7999999996
No 21
>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=44.80 E-value=8.3 Score=35.47 Aligned_cols=17 Identities=18% Similarity=0.132 Sum_probs=13.4
Q ss_pred eeeeccCCCceeeceEe
Q psy3060 109 RFVGRSGREAEASPKDW 125 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~ 125 (268)
-+||.||+|||=-|.|.
T Consensus 33 silGpSGcGKSTLLrii 49 (248)
T COG1116 33 AILGPSGCGKSTLLRLI 49 (248)
T ss_pred EEECCCCCCHHHHHHHH
Confidence 36899999999666554
No 22
>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=44.49 E-value=8.8 Score=32.49 Aligned_cols=15 Identities=13% Similarity=0.162 Sum_probs=11.9
Q ss_pred eeeeccCCCceeece
Q psy3060 109 RFVGRSGREAEASPK 123 (268)
Q Consensus 109 RFVGRSGRGKsFtlt 123 (268)
=+||.||.|||=.|.
T Consensus 29 ~IvG~NGsGKStll~ 43 (251)
T cd03273 29 AITGLNGSGKSNILD 43 (251)
T ss_pred EEECCCCCCHHHHHH
Confidence 379999999985544
No 23
>TIGR02323 CP_lyasePhnK phosphonate C-P lyase system protein PhnK. Members of this family are the PhnK protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated complex. This protein (PhnK) and the adjacent-encoded PhnL resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this complex rather than part of a transporter per se.
Probab=44.17 E-value=14 Score=30.96 Aligned_cols=17 Identities=24% Similarity=0.182 Sum_probs=12.8
Q ss_pred eeeeccCCCceeeceEe
Q psy3060 109 RFVGRSGREAEASPKDW 125 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~ 125 (268)
-.+|.||.|||=-|.+.
T Consensus 33 ~i~G~nGsGKSTLl~~l 49 (253)
T TIGR02323 33 GIVGESGSGKSTLLGCL 49 (253)
T ss_pred EEECCCCCCHHHHHHHH
Confidence 45899999999655544
No 24
>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=43.98 E-value=15 Score=29.76 Aligned_cols=19 Identities=26% Similarity=0.167 Sum_probs=13.6
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+-.+|+||.|||==|.+..
T Consensus 30 ~~i~G~nGsGKSTLl~~l~ 48 (214)
T cd03292 30 VFLVGPSGAGKSTLLKLIY 48 (214)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 3468999999995554443
No 25
>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=43.52 E-value=11 Score=28.32 Aligned_cols=17 Identities=12% Similarity=0.272 Sum_probs=13.1
Q ss_pred eecceeeeeccCCCcee
Q psy3060 104 KFNDLRFVGRSGREAEA 120 (268)
Q Consensus 104 rFNDLRFVGRSGRGKsF 120 (268)
+--.+=++|.+|.|||=
T Consensus 6 ~~~~v~v~G~~~~GKSs 22 (169)
T cd04114 6 FLFKIVLIGNAGVGKTC 22 (169)
T ss_pred ceeEEEEECCCCCCHHH
Confidence 33457799999999983
No 26
>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=42.43 E-value=10 Score=30.36 Aligned_cols=18 Identities=17% Similarity=0.189 Sum_probs=14.3
Q ss_pred eeeeeccCCCceeeceEe
Q psy3060 108 LRFVGRSGREAEASPKDW 125 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~ 125 (268)
.=++|.||.|||=.+.+.
T Consensus 18 v~I~GpSGsGKSTLl~~l 35 (107)
T cd00820 18 VLITGDSGIGKTELALEL 35 (107)
T ss_pred EEEEcCCCCCHHHHHHHh
Confidence 357899999999776664
No 27
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=42.02 E-value=10 Score=28.01 Aligned_cols=20 Identities=15% Similarity=0.298 Sum_probs=14.5
Q ss_pred ceeeec----ceeeeeccCCCcee
Q psy3060 101 QVAKFN----DLRFVGRSGREAEA 120 (268)
Q Consensus 101 qVArFN----DLRFVGRSGRGKsF 120 (268)
+...|+ ..=+.|.+|.|||=
T Consensus 15 ~~~~~~~~g~~tli~G~nGsGKST 38 (62)
T PF13555_consen 15 ETIDFDPRGDVTLITGPNGSGKST 38 (62)
T ss_pred eEEeecCCCcEEEEECCCCCCHHH
Confidence 455564 25689999999983
No 28
>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=41.51 E-value=16 Score=34.25 Aligned_cols=14 Identities=21% Similarity=0.380 Sum_probs=10.9
Q ss_pred eeeccCCCceeece
Q psy3060 110 FVGRSGREAEASPK 123 (268)
Q Consensus 110 FVGRSGRGKsFtlt 123 (268)
.+|+||.|||=-|.
T Consensus 35 iIG~SGaGKSTLLR 48 (258)
T COG3638 35 IIGPSGAGKSTLLR 48 (258)
T ss_pred EECCCCCcHHHHHH
Confidence 47999999985443
No 29
>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=41.16 E-value=10 Score=33.42 Aligned_cols=15 Identities=13% Similarity=0.377 Sum_probs=11.7
Q ss_pred eeeeeccCCCceeec
Q psy3060 108 LRFVGRSGREAEASP 122 (268)
Q Consensus 108 LRFVGRSGRGKsFtl 122 (268)
+=++|++|.|||=.+
T Consensus 34 IllvG~tGvGKSSli 48 (249)
T cd01853 34 ILVLGKTGVGKSSTI 48 (249)
T ss_pred EEEECCCCCcHHHHH
Confidence 447999999998443
No 30
>cd01898 Obg Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins conserved from bacteria to humans. The E. coli homolog, ObgE is believed to function in ribosomal biogenesis. Members of the subfamily contain two equally and highly conserved domains, a C-terminal GTP binding domain and an N-terminal glycine-rich domain.
Probab=40.95 E-value=12 Score=28.04 Aligned_cols=13 Identities=23% Similarity=0.373 Sum_probs=11.4
Q ss_pred ceeeeeccCCCce
Q psy3060 107 DLRFVGRSGREAE 119 (268)
Q Consensus 107 DLRFVGRSGRGKs 119 (268)
|+=+||++|.|||
T Consensus 2 ~v~ivG~~~~GKS 14 (170)
T cd01898 2 DVGLVGLPNAGKS 14 (170)
T ss_pred CeEEECCCCCCHH
Confidence 5668999999997
No 31
>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=40.75 E-value=11 Score=32.13 Aligned_cols=33 Identities=18% Similarity=0.272 Sum_probs=20.4
Q ss_pred ecCCCccccccccceeeeccceeeecceeeeeccCCCceee
Q psy3060 81 AGNDENYCGELRNCTAVMKNQVAKFNDLRFVGRSGREAEAS 121 (268)
Q Consensus 81 AGNDEN~~AELRN~tAvMKNqVArFNDLRFVGRSGRGKsFt 121 (268)
..++.....|||.. +++++ .=|+|-||.|||=-
T Consensus 19 S~~~~~g~~~l~~~---l~~k~-----~vl~G~SGvGKSSL 51 (161)
T PF03193_consen 19 SAKTGEGIEELKEL---LKGKT-----SVLLGQSGVGKSSL 51 (161)
T ss_dssp BTTTTTTHHHHHHH---HTTSE-----EEEECSTTSSHHHH
T ss_pred eCCCCcCHHHHHHH---hcCCE-----EEEECCCCCCHHHH
Confidence 33355556666643 33333 34799999999843
No 32
>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A ....
Probab=40.55 E-value=12 Score=27.33 Aligned_cols=11 Identities=18% Similarity=0.368 Sum_probs=9.5
Q ss_pred eeeccCCCcee
Q psy3060 110 FVGRSGREAEA 120 (268)
Q Consensus 110 FVGRSGRGKsF 120 (268)
.+|.||.|||-
T Consensus 4 I~G~~gsGKST 14 (121)
T PF13207_consen 4 ISGPPGSGKST 14 (121)
T ss_dssp EEESTTSSHHH
T ss_pred EECCCCCCHHH
Confidence 57999999984
No 33
>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=40.26 E-value=12 Score=31.05 Aligned_cols=13 Identities=31% Similarity=0.411 Sum_probs=10.7
Q ss_pred eeeeccCCCceee
Q psy3060 109 RFVGRSGREAEAS 121 (268)
Q Consensus 109 RFVGRSGRGKsFt 121 (268)
=++|++|.|||=-
T Consensus 27 ~i~GpNGsGKStl 39 (243)
T cd03272 27 VVVGRNGSGKSNF 39 (243)
T ss_pred EEECCCCCCHHHH
Confidence 3899999999843
No 34
>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=38.98 E-value=12 Score=28.34 Aligned_cols=13 Identities=8% Similarity=0.192 Sum_probs=11.1
Q ss_pred eeeeeccCCCcee
Q psy3060 108 LRFVGRSGREAEA 120 (268)
Q Consensus 108 LRFVGRSGRGKsF 120 (268)
+=++|.+|.|||=
T Consensus 17 v~i~G~~g~GKSt 29 (173)
T cd04155 17 ILILGLDNAGKTT 29 (173)
T ss_pred EEEEccCCCCHHH
Confidence 5589999999983
No 35
>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit. The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.
Probab=38.96 E-value=12 Score=34.94 Aligned_cols=31 Identities=13% Similarity=0.095 Sum_probs=18.1
Q ss_pred ccccceeeeccceeeecceeeeeccCCCceeeceE
Q psy3060 90 ELRNCTAVMKNQVAKFNDLRFVGRSGREAEASPKD 124 (268)
Q Consensus 90 ELRN~tAvMKNqVArFNDLRFVGRSGRGKsFtlti 124 (268)
-|+|.+-.++.+ .=.=+||.||.|||=-+.+
T Consensus 350 vL~~isl~i~~G----~~vaIvG~SGsGKSTLl~l 380 (529)
T TIGR02868 350 VLDGVSLDLPPG----ERVAILGPSGSGKSTLLML 380 (529)
T ss_pred eeecceEEEcCC----CEEEEECCCCCCHHHHHHH
Confidence 355554444332 1234799999999943333
No 36
>cd04119 RJL RJL (RabJ-Like) subfamily. RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.
Probab=38.93 E-value=12 Score=27.60 Aligned_cols=11 Identities=27% Similarity=0.277 Sum_probs=9.8
Q ss_pred eeeeccCCCce
Q psy3060 109 RFVGRSGREAE 119 (268)
Q Consensus 109 RFVGRSGRGKs 119 (268)
=++|++|.|||
T Consensus 4 ~~vG~~~vGKT 14 (168)
T cd04119 4 ISMGNSGVGKS 14 (168)
T ss_pred EEECCCCCCHH
Confidence 48999999996
No 37
>TIGR03263 guanyl_kin guanylate kinase. Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.
Probab=38.84 E-value=12 Score=29.32 Aligned_cols=17 Identities=24% Similarity=0.167 Sum_probs=12.4
Q ss_pred eeeeccCCCceeeceEe
Q psy3060 109 RFVGRSGREAEASPKDW 125 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~ 125 (268)
=++|.||.|||=-+...
T Consensus 5 ~l~G~~GsGKsTl~~~L 21 (180)
T TIGR03263 5 VISGPSGVGKSTLVKAL 21 (180)
T ss_pred EEECCCCCCHHHHHHHH
Confidence 37899999999644333
No 38
>TIGR00157 ribosome small subunit-dependent GTPase A. The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).
Probab=37.79 E-value=13 Score=32.31 Aligned_cols=38 Identities=21% Similarity=0.253 Sum_probs=23.8
Q ss_pred EEEEeecCCCccccccccceeeeccceeeecceeeeeccCCCceeec
Q psy3060 76 IVTIRAGNDENYCGELRNCTAVMKNQVAKFNDLRFVGRSGREAEASP 122 (268)
Q Consensus 76 ~Vtv~AGNDEN~~AELRN~tAvMKNqVArFNDLRFVGRSGRGKsFtl 122 (268)
.+.++|-+.++ -.||.+..+ ++ -.=|+|.||.|||=-|
T Consensus 100 v~~~SAktg~g-i~eLf~~l~---~~-----~~~~~G~sgvGKStLi 137 (245)
T TIGR00157 100 VLMTSSKNQDG-LKELIEALQ---NR-----ISVFAGQSGVGKSSLI 137 (245)
T ss_pred EEEEecCCchh-HHHHHhhhc---CC-----EEEEECCCCCCHHHHH
Confidence 34567777665 455665433 22 2349999999998443
No 39
>cd04104 p47_IIGP_like p47 (47-kDa) family. The p47 GTPase family consists of several highly homologous proteins, including IGTP, TGTP/Mg21, IRG-47, GTPI, LRG-47, and IIGP1. They are found in higher eukaryotes where they play a role in immune resistance against intracellular pathogens. p47 proteins exist at low resting levels in mouse cells, but are strongly induced by Type II interferon (IFN-gamma). ITGP is critical for resistance to Toxoplasma gondii infection and in involved in inhibition of Coxsackievirus-B3-induced apoptosis. TGTP was shown to limit vesicular stomatitis virus (VSV) infection of fibroblasts in vitro. IRG-47 is involved in resistance to T. gondii infection. LRG-47 has been implicated in resistance to T. gondii, Listeria monocytogenes, Leishmania, and mycobacterial infections. IIGP1 has been shown to localize to the ER and to the Golgi membranes in IFN-induced cells and inflamed tissues. In macrophages, IIGP1 interacts with hook3, a microtubule binding protei
Probab=37.44 E-value=13 Score=30.35 Aligned_cols=12 Identities=25% Similarity=0.459 Sum_probs=10.3
Q ss_pred eeeeeccCCCce
Q psy3060 108 LRFVGRSGREAE 119 (268)
Q Consensus 108 LRFVGRSGRGKs 119 (268)
+=++|+||.|||
T Consensus 4 I~i~G~~g~GKS 15 (197)
T cd04104 4 IAVTGESGAGKS 15 (197)
T ss_pred EEEECCCCCCHH
Confidence 347999999998
No 40
>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency, degenerative retinopathies, and congenital keratinization disorders. The ABCA1 protein is involved in disorders of cholesterol transport and high-density lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR) protein transports vitamin A derivatives in the outer segments of photoreceptor cells, and therefore, performs a crucial step in the visual cycle. The ABCA genes are not present in yeast. However, evolutionary studies of ABCA genes indicate that they arose as transporters that subsequently duplicated and that certain sets of ABCA genes were lost in different eukaryotic lineages.
Probab=37.20 E-value=13 Score=30.25 Aligned_cols=19 Identities=16% Similarity=0.298 Sum_probs=14.2
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+-.+|+||.|||=-|.+..
T Consensus 31 ~~i~G~nGsGKSTLl~~l~ 49 (220)
T cd03263 31 FGLLGHNGAGKTTTLKMLT 49 (220)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 4578999999996555543
No 41
>cd00154 Rab Rab family. Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide di
Probab=37.07 E-value=13 Score=26.52 Aligned_cols=12 Identities=25% Similarity=0.493 Sum_probs=10.4
Q ss_pred eeeeeccCCCce
Q psy3060 108 LRFVGRSGREAE 119 (268)
Q Consensus 108 LRFVGRSGRGKs 119 (268)
+-++|.+|.|||
T Consensus 3 i~~~G~~~~GKS 14 (159)
T cd00154 3 IVLIGDSGVGKT 14 (159)
T ss_pred EEEECCCCCCHH
Confidence 347999999998
No 42
>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=36.85 E-value=11 Score=31.10 Aligned_cols=17 Identities=18% Similarity=0.300 Sum_probs=14.1
Q ss_pred eeeccCCCceeeceEee
Q psy3060 110 FVGRSGREAEASPKDWV 126 (268)
Q Consensus 110 FVGRSGRGKsFtlti~v 126 (268)
.+|.+|.|||+++...+
T Consensus 28 I~G~TGsGKS~~~~~ll 44 (229)
T PF01935_consen 28 IFGTTGSGKSNTVKVLL 44 (229)
T ss_pred EECCCCCCHHHHHHHHH
Confidence 46999999999987654
No 43
>cd01857 HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has only eukaryote members. This subfamily shows a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with sequence NKXD) are relocated to the N terminus.
Probab=35.79 E-value=32 Score=26.51 Aligned_cols=14 Identities=14% Similarity=0.261 Sum_probs=11.7
Q ss_pred ceeeeeccCCCcee
Q psy3060 107 DLRFVGRSGREAEA 120 (268)
Q Consensus 107 DLRFVGRSGRGKsF 120 (268)
-.=|+|.||.|||=
T Consensus 85 ~~~~~G~~~vGKst 98 (141)
T cd01857 85 TIGLVGYPNVGKSS 98 (141)
T ss_pred EEEEECCCCCCHHH
Confidence 35699999999985
No 44
>cd03224 ABC_TM1139_LivF_branched LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.
Probab=35.79 E-value=14 Score=29.98 Aligned_cols=19 Identities=21% Similarity=0.371 Sum_probs=13.8
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+=.+|.||.|||=-|.+..
T Consensus 29 ~~i~G~nGsGKSTLl~~l~ 47 (222)
T cd03224 29 VALLGRNGAGKTTLLKTIM 47 (222)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 3468999999996555443
No 45
>cd01859 MJ1464 MJ1464. This family represents archaeal GTPase typified by the protein MJ1464 from Methanococcus jannaschii. The members of this family show a circular permutation of the GTPase signature motifs so that C-terminal strands 5, 6, and 7 (strands 6 contain the NKxD motif) are relocated to the N terminus.
Probab=35.77 E-value=13 Score=28.73 Aligned_cols=44 Identities=16% Similarity=0.119 Sum_probs=28.4
Q ss_pred EEEEeecCCCccccccccceeeeccceeeecceeeeeccCCCcee
Q psy3060 76 IVTIRAGNDENYCGELRNCTAVMKNQVAKFNDLRFVGRSGREAEA 120 (268)
Q Consensus 76 ~Vtv~AGNDEN~~AELRN~tAvMKNqVArFNDLRFVGRSGRGKsF 120 (268)
.+.++|-+.++ ..||++....+-..-++.-..-++|.||.|||=
T Consensus 73 ~~~iSa~~~~g-i~~L~~~l~~~~~~~~~~~~~~~ig~~~~Gkss 116 (156)
T cd01859 73 VVYVSAKERLG-TKILRRTIKELAKIDGKEGKVGVVGYPNVGKSS 116 (156)
T ss_pred EEEEEcccccc-HHHHHHHHHHHHhhcCCCcEEEEECCCCCCHHH
Confidence 46677766655 466776655433333344456899999999974
No 46
>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=35.56 E-value=15 Score=29.81 Aligned_cols=19 Identities=16% Similarity=0.142 Sum_probs=14.4
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+=.+|.||.|||=-|.+..
T Consensus 30 ~~l~G~nGsGKSTLl~~l~ 48 (211)
T cd03225 30 VLIVGPNGSGKSTLLRLLN 48 (211)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 4468999999997666554
No 47
>cd01879 FeoB Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent.
Probab=35.53 E-value=12 Score=27.48 Aligned_cols=10 Identities=20% Similarity=0.328 Sum_probs=8.9
Q ss_pred eeeccCCCce
Q psy3060 110 FVGRSGREAE 119 (268)
Q Consensus 110 FVGRSGRGKs 119 (268)
++|++|.|||
T Consensus 1 l~G~~~~GKs 10 (158)
T cd01879 1 LVGNPNVGKT 10 (158)
T ss_pred CCCCCCCCHH
Confidence 5899999997
No 48
>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=35.30 E-value=15 Score=29.48 Aligned_cols=19 Identities=16% Similarity=0.190 Sum_probs=14.3
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+=++|+||.|||=-|.+..
T Consensus 21 ~~i~G~nGsGKSTLl~~i~ 39 (190)
T TIGR01166 21 LALLGANGAGKSTLLLHLN 39 (190)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 3468999999996665544
No 49
>TIGR02528 EutP ethanolamine utilization protein, EutP. This protein is found within operons which code for polyhedral organelles containing the enzyme ethanolamine ammonia lyase. The function of this gene is unknown, although the presence of an N-terminal GxxGxGK motif implies a GTP-binding site.
Probab=35.23 E-value=15 Score=27.18 Aligned_cols=12 Identities=25% Similarity=0.548 Sum_probs=10.3
Q ss_pred eeeeeccCCCce
Q psy3060 108 LRFVGRSGREAE 119 (268)
Q Consensus 108 LRFVGRSGRGKs 119 (268)
+=++|++|.|||
T Consensus 3 v~liG~~~vGKS 14 (142)
T TIGR02528 3 IMFIGSVGCGKT 14 (142)
T ss_pred EEEECCCCCCHH
Confidence 347999999998
No 50
>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=35.06 E-value=15 Score=30.61 Aligned_cols=16 Identities=19% Similarity=0.237 Sum_probs=12.5
Q ss_pred eeeeccCCCceeeceE
Q psy3060 109 RFVGRSGREAEASPKD 124 (268)
Q Consensus 109 RFVGRSGRGKsFtlti 124 (268)
-++|+||.|||=-+..
T Consensus 26 ~i~G~nGsGKStll~a 41 (197)
T cd03278 26 AIVGPNGSGKSNIIDA 41 (197)
T ss_pred EEECCCCCCHHHHHHH
Confidence 3899999999855543
No 51
>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates.
Probab=34.78 E-value=15 Score=29.86 Aligned_cols=18 Identities=22% Similarity=0.270 Sum_probs=13.7
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
=.+|+||.|||=-|.+..
T Consensus 29 ~l~G~nGsGKSTLl~~l~ 46 (213)
T cd03235 29 AIVGPNGAGKSTLLKAIL 46 (213)
T ss_pred EEECCCCCCHHHHHHHHc
Confidence 468999999996665544
No 52
>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=34.73 E-value=16 Score=33.07 Aligned_cols=14 Identities=21% Similarity=0.349 Sum_probs=11.5
Q ss_pred eeeeccCCCceeec
Q psy3060 109 RFVGRSGREAEASP 122 (268)
Q Consensus 109 RFVGRSGRGKsFtl 122 (268)
=++|+||+|||--|
T Consensus 17 viIG~sGSGKT~li 30 (241)
T PF04665_consen 17 VIIGKSGSGKTTLI 30 (241)
T ss_pred EEECCCCCCHHHHH
Confidence 37999999999644
No 53
>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=34.60 E-value=15 Score=29.77 Aligned_cols=19 Identities=11% Similarity=0.151 Sum_probs=14.6
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+-++|.||.|||=-|.+..
T Consensus 28 ~~i~G~nGsGKSTLl~~l~ 46 (211)
T cd03264 28 YGLLGPNGAGKTTLMRILA 46 (211)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 5579999999997665543
No 54
>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=34.59 E-value=16 Score=30.82 Aligned_cols=12 Identities=25% Similarity=0.326 Sum_probs=10.5
Q ss_pred eeeeeccCCCce
Q psy3060 108 LRFVGRSGREAE 119 (268)
Q Consensus 108 LRFVGRSGRGKs 119 (268)
+=|.|.||.|||
T Consensus 17 vLi~G~sG~GKS 28 (149)
T cd01918 17 VLITGPSGIGKS 28 (149)
T ss_pred EEEEcCCCCCHH
Confidence 348999999999
No 55
>cd04160 Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related protein 1), formerly known as ARP, is a membrane-associated Arf family member that lacks the N-terminal myristoylation motif. Arfrp1 is mainly associated with the trans-Golgi compartment and the trans-Golgi network, where it regulates the targeting of Arl1 and the GRIP domain-containing proteins, golgin-97 and golgin-245, onto Golgi membranes. It is also involved in the anterograde transport of the vesicular stomatitis virus G protein from the Golgi to the plasma membrane, and in the retrograde transport of TGN38 and Shiga toxin from endosomes to the trans-Golgi network. Arfrp1 also inhibits Arf/Sec7-dependent activation of phospholipase D. Deletion of Arfrp1 in mice causes embryonic lethality at the gastrulation stage and apoptosis of mesodermal cells, indicating its importance in development.
Probab=34.49 E-value=16 Score=27.39 Aligned_cols=12 Identities=8% Similarity=0.163 Sum_probs=10.4
Q ss_pred eeeeeccCCCce
Q psy3060 108 LRFVGRSGREAE 119 (268)
Q Consensus 108 LRFVGRSGRGKs 119 (268)
+-++|++|.|||
T Consensus 2 i~~vG~~~~GKs 13 (167)
T cd04160 2 VLILGLDNAGKT 13 (167)
T ss_pred EEEEecCCCCHH
Confidence 458999999998
No 56
>cd01868 Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 are closely related, evolutionary conserved Rab proteins that are differentially expressed. Rab11a is ubiquitously synthesized, Rab11b is enriched in brain and heart and Rab25 is only found in epithelia. Rab11/25 proteins seem to regulate recycling pathways from endosomes to the plasma membrane and to the trans-Golgi network. Furthermore, Rab11a is thought to function in the histamine-induced fusion of tubulovesicles containing H+, K+ ATPase with the plasma membrane in gastric parietal cells and in insulin-stimulated insertion of GLUT4 in the plasma membrane of cardiomyocytes. Overexpression of Rab25 has recently been observed in ovarian cancer and breast cancer, and has been correlated with worsened outcomes in both diseases. In addition, Rab25 overexpression has also been observed in prostate cancer, transitional cell carcinoma of the bladder, and invasive breast tumor cells. GTPase activating proteins (GAPs) interact with GTP
Probab=34.48 E-value=16 Score=27.56 Aligned_cols=13 Identities=23% Similarity=0.455 Sum_probs=10.9
Q ss_pred eeeeeccCCCcee
Q psy3060 108 LRFVGRSGREAEA 120 (268)
Q Consensus 108 LRFVGRSGRGKsF 120 (268)
+=++|++|.|||-
T Consensus 6 i~vvG~~~~GKSs 18 (165)
T cd01868 6 IVLIGDSGVGKSN 18 (165)
T ss_pred EEEECCCCCCHHH
Confidence 4589999999983
No 57
>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=34.36 E-value=16 Score=30.86 Aligned_cols=17 Identities=18% Similarity=0.235 Sum_probs=13.4
Q ss_pred eeeeccCCCceeeceEe
Q psy3060 109 RFVGRSGREAEASPKDW 125 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~ 125 (268)
=|+|++|.|||=.|.+.
T Consensus 29 ~ivGpNGaGKSTll~~i 45 (212)
T cd03274 29 AIVGPNGSGKSNVIDSM 45 (212)
T ss_pred EEECCCCCCHHHHHHHH
Confidence 38999999998666553
No 58
>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed
Probab=34.34 E-value=15 Score=34.66 Aligned_cols=13 Identities=31% Similarity=0.422 Sum_probs=10.7
Q ss_pred eeeeccCCCceee
Q psy3060 109 RFVGRSGREAEAS 121 (268)
Q Consensus 109 RFVGRSGRGKsFt 121 (268)
=.||+||.|||==
T Consensus 380 aIvG~SGsGKSTL 392 (588)
T PRK11174 380 ALVGPSGAGKTSL 392 (588)
T ss_pred EEECCCCCCHHHH
Confidence 4699999999943
No 59
>cd00882 Ras_like_GTPase Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras, Rho, Rab, and Sar1/Arf families. This superfamily also includes proteins like the GTP translation factors, Era-like GTPases, and G-alpha chain of the heterotrimeric G proteins. Members of the Ras superfamily regulate a wide variety of cellular functions: the Ras family regulates gene expression, the Rho family regulates cytoskeletal reorganization and gene expression, the Rab and Sar1/Arf families regulate vesicle trafficking, and the Ran family regulates nucleocytoplasmic transport and microtubule organization. The GTP translation factor family regulate initiation, elongation, termination, and release in translation, and the Era-like GTPase family regulates cell division, sporulation, and DNA replication. Memb
Probab=34.29 E-value=13 Score=25.33 Aligned_cols=11 Identities=36% Similarity=0.498 Sum_probs=9.2
Q ss_pred eeeccCCCcee
Q psy3060 110 FVGRSGREAEA 120 (268)
Q Consensus 110 FVGRSGRGKsF 120 (268)
++|.+|.|||=
T Consensus 1 iiG~~~~GKSt 11 (157)
T cd00882 1 VVGDSGVGKTS 11 (157)
T ss_pred CCCcCCCcHHH
Confidence 47999999984
No 60
>PRK12288 GTPase RsgA; Reviewed
Probab=34.25 E-value=15 Score=34.06 Aligned_cols=40 Identities=20% Similarity=0.322 Sum_probs=26.0
Q ss_pred eEEEEeecCCCccccccccceeeeccceeeecceeeeeccCCCceeece
Q psy3060 75 TIVTIRAGNDENYCGELRNCTAVMKNQVAKFNDLRFVGRSGREAEASPK 123 (268)
Q Consensus 75 T~Vtv~AGNDEN~~AELRN~tAvMKNqVArFNDLRFVGRSGRGKsFtlt 123 (268)
..+.++|-+.++ ..||++... +++ .=|+|.||.|||=-|.
T Consensus 184 ~v~~vSA~tg~G-ideL~~~L~---~ki-----~~~vG~sgVGKSTLiN 223 (347)
T PRK12288 184 RVLMVSSHTGEG-LEELEAALT---GRI-----SIFVGQSGVGKSSLIN 223 (347)
T ss_pred eEEEEeCCCCcC-HHHHHHHHh---hCC-----EEEECCCCCCHHHHHH
Confidence 456677777776 456665442 333 3489999999995443
No 61
>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase domain that forms a canonical Ras-like fold. It functions a molecular switch GTPase, and apparently uses a conformational change associated with GTP hydrolysis to promote the tRNA modification reaction, in which the conserved cysteine in the C-terminal domain is thought to function as a catalytic residue. In bacteria that are able to survive in extremely low pH conditions, TrmE regulates glutamate-dependent acid resistance.
Probab=34.23 E-value=16 Score=26.50 Aligned_cols=12 Identities=17% Similarity=0.315 Sum_probs=10.3
Q ss_pred eeeeeccCCCce
Q psy3060 108 LRFVGRSGREAE 119 (268)
Q Consensus 108 LRFVGRSGRGKs 119 (268)
+=++|.+|.|||
T Consensus 4 i~l~G~~~~GKs 15 (157)
T cd04164 4 VVIVGKPNVGKS 15 (157)
T ss_pred EEEECCCCCCHH
Confidence 347899999998
No 62
>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=34.18 E-value=16 Score=30.30 Aligned_cols=18 Identities=22% Similarity=0.259 Sum_probs=13.2
Q ss_pred eeeeeccCCCceeeceEe
Q psy3060 108 LRFVGRSGREAEASPKDW 125 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~ 125 (268)
+=.+|.||.|||=-|.+.
T Consensus 29 ~~l~G~nGsGKSTLl~~l 46 (235)
T cd03261 29 LAIIGPSGSGKSTLLRLI 46 (235)
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 346899999999555444
No 63
>PRK14257 phosphate ABC transporter ATP-binding protein; Provisional
Probab=33.94 E-value=16 Score=33.19 Aligned_cols=19 Identities=21% Similarity=0.300 Sum_probs=14.2
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+=++|+||.|||=-|.+..
T Consensus 111 v~IvG~~GsGKSTLl~~L~ 129 (329)
T PRK14257 111 TAFIGPSGCGKSTFLRNLN 129 (329)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 4579999999996555444
No 64
>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=33.81 E-value=16 Score=29.61 Aligned_cols=18 Identities=22% Similarity=0.095 Sum_probs=13.7
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
=++|.||.|||=-+.+..
T Consensus 32 ~l~G~nGsGKSTLl~~i~ 49 (214)
T TIGR02673 32 FLTGPSGAGKTTLLKLLY 49 (214)
T ss_pred EEECCCCCCHHHHHHHHh
Confidence 468999999996665543
No 65
>PF04548 AIG1: AIG1 family; InterPro: IPR006703 This entry represents a domain found in Arabidopsis protein AIG1 which appears to be involved in plant resistance to bacteria. The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 (avrRpt2-induced gene) exhibits RPS2- and avrRpt2-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2 []. The domain is also apparently found in a number of mammalian proteins, for example the rat immune-associated nucleotide 4 protein. ; GO: 0005525 GTP binding; PDB: 3LXX_A 3BB4_A 3DEF_A 3BB3_A 2J3E_A 3V70_B 3BB1_A 1H65_B 2XTP_A 3P1J_C ....
Probab=33.79 E-value=16 Score=30.52 Aligned_cols=12 Identities=17% Similarity=0.529 Sum_probs=10.3
Q ss_pred eeeccCCCceee
Q psy3060 110 FVGRSGREAEAS 121 (268)
Q Consensus 110 FVGRSGRGKsFt 121 (268)
++|++|.|||=.
T Consensus 5 llG~tGsGKSs~ 16 (212)
T PF04548_consen 5 LLGKTGSGKSSL 16 (212)
T ss_dssp EECSTTSSHHHH
T ss_pred EECCCCCCHHHH
Confidence 689999999943
No 66
>cd04123 Rab21 Rab21 subfamily. The localization and function of Rab21 are not clearly defined, with conflicting data reported. Rab21 has been reported to localize in the ER in human intestinal epithelial cells, with partial colocalization with alpha-glucosidase, a late endosomal/lysosomal marker. More recently, Rab21 was shown to colocalize with and affect the morphology of early endosomes. In Dictyostelium, GTP-bound Rab21, together with two novel LIM domain proteins, LimF and ChLim, has been shown to regulate phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site
Probab=33.71 E-value=19 Score=26.41 Aligned_cols=14 Identities=7% Similarity=0.138 Sum_probs=11.4
Q ss_pred eeeeeccCCCceee
Q psy3060 108 LRFVGRSGREAEAS 121 (268)
Q Consensus 108 LRFVGRSGRGKsFt 121 (268)
+-++|.+|.|||=-
T Consensus 3 i~i~G~~~~GKStl 16 (162)
T cd04123 3 VVLLGEGRVGKTSL 16 (162)
T ss_pred EEEECCCCCCHHHH
Confidence 45899999999853
No 67
>TIGR03797 NHPM_micro_ABC2 NHPM bacteriocin system ABC transporter, ATP-binding protein. Members of this protein family are ABC transporter ATP-binding subunits, part of a three-gene putative bacteriocin transport operon. The other subunits include another ATP-binding subunit (TIGR03796), which has an N-terminal propeptide cleavage domain, and an HlyD homolog (TIGR03794). In a number of genomes, a conserved propeptide sequence with a classic Gly-Gly motif
Probab=33.65 E-value=16 Score=35.51 Aligned_cols=17 Identities=24% Similarity=0.272 Sum_probs=12.6
Q ss_pred eeeeeccCCCceeeceE
Q psy3060 108 LRFVGRSGREAEASPKD 124 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti 124 (268)
+-.||+||.|||==+.+
T Consensus 482 vaIvG~sGsGKSTLlkl 498 (686)
T TIGR03797 482 VAIVGPSGSGKSTLLRL 498 (686)
T ss_pred EEEECCCCCCHHHHHHH
Confidence 44799999999944433
No 68
>PF05356 Phage_Coat_B: Phage Coat protein B ; InterPro: IPR008020 The major coat protein in the capsid of filamentous bacteriophage forms a helical assembly of about 7000 identical protomers, with each protomer comprised of 46 amino acids, after the cleavage of the signal peptide. Each protomer forms a slightly curved helix that combines to form a tubular structure that encapsulates the viral DNA [].; PDB: 1QL1_A 2XKM_A 4IFM_A 1QL2_A 1IFM_A 2KLV_A 1IFN_A 2IFN_A 3IFM_A 2KSJ_A ....
Probab=33.64 E-value=14 Score=29.76 Aligned_cols=15 Identities=33% Similarity=0.406 Sum_probs=0.0
Q ss_pred eeccceeeecceeee
Q psy3060 97 VMKNQVAKFNDLRFV 111 (268)
Q Consensus 97 vMKNqVArFNDLRFV 111 (268)
-||||+||||-.|=.
T Consensus 3 ~mkq~i~kf~~v~sf 17 (83)
T PF05356_consen 3 GMKQAIAKFRPVPSF 17 (83)
T ss_dssp ---------------
T ss_pred hHHHHHHhcCCcHHH
Confidence 599999999988643
No 69
>cd03277 ABC_SMC5_euk Eukaryotic SMC5 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=33.51 E-value=26 Score=29.78 Aligned_cols=32 Identities=16% Similarity=0.167 Sum_probs=18.6
Q ss_pred cccceeeeccceeeecc-e-eeeeccCCCceeece
Q psy3060 91 LRNCTAVMKNQVAKFND-L-RFVGRSGREAEASPK 123 (268)
Q Consensus 91 LRN~tAvMKNqVArFND-L-RFVGRSGRGKsFtlt 123 (268)
|+|.... ++..-.|++ + =|+|++|.|||=-|.
T Consensus 8 i~nfr~~-~~~~i~~~~g~n~i~G~NgsGKS~lle 41 (213)
T cd03277 8 LENFVTY-DETEFRPGPSLNMIIGPNGSGKSSIVC 41 (213)
T ss_pred EeCCCCc-ceeEEecCCCeEEEECCCCCCHHHHHH
Confidence 4444443 333334554 2 589999999984443
No 70
>PF10442 FIST_C: FIST C domain; InterPro: IPR019494 This entry represents a novel sensory domain, designated FIST C (short for F-box and intracellular signal transduction, C-terminal), which is present in signal transduction proteins from bacteria, archaea and eukaryotes. The chromosomal proximity of FIST-encoding genes to those coding for proteins involved in amino acid metabolism and transport suggest that FIST domains bind small ligands, such as amino acids [].
Probab=33.27 E-value=15 Score=28.02 Aligned_cols=34 Identities=21% Similarity=0.311 Sum_probs=28.0
Q ss_pred EEEeeecCCCeEEEEeecCCCccccccccceeee
Q psy3060 65 VVALGDVMDGTIVTIRAGNDENYCGELRNCTAVM 98 (268)
Q Consensus 65 VvaLg~VpDGT~Vtv~AGNDEN~~AELRN~tAvM 98 (268)
+.-.++|+.|+.|.++-+|-+...+.++.+...+
T Consensus 50 l~~~~~v~eG~~v~l~~~~~~~~~~~~~~~~~~~ 83 (136)
T PF10442_consen 50 LTFAGDVPEGSEVQLMEGDPEDIIESAEEALEKA 83 (136)
T ss_pred EEEeeecCCCCEEEEEcCCHHHHHHHHHHHHHhh
Confidence 3455899999999999999888888877776665
No 71
>TIGR01193 bacteriocin_ABC ABC-type bacteriocin transporter. This model describes ABC-type bacteriocin transporter. The amino terminal domain (pfam03412) processes the N-terminal leader peptide from the bacteriocin while C-terminal domains resemble ABC transporter membrane protein and ATP-binding cassette domain. In general, bacteriocins are agents which are responsible for killing or inhibiting the closely related species or even different strains of the same species. Bacteriocins are usually encoded by bacterial plasmids. Bacteriocins are named after the species and hence in literature one encounters various names e.g., leucocin from Leuconostic geldium; pedicocin from Pedicoccus acidilactici; sakacin from Lactobacillus sake etc.
Probab=32.95 E-value=17 Score=35.53 Aligned_cols=19 Identities=32% Similarity=0.284 Sum_probs=13.6
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+-.||+||.|||=-+.+..
T Consensus 503 vaIvG~SGsGKSTLlklL~ 521 (708)
T TIGR01193 503 TTIVGMSGSGKSTLAKLLV 521 (708)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 4579999999994444433
No 72
>TIGR00231 small_GTP small GTP-binding protein domain. This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model.
Probab=32.92 E-value=17 Score=25.44 Aligned_cols=12 Identities=17% Similarity=0.199 Sum_probs=10.1
Q ss_pred eeeeccCCCcee
Q psy3060 109 RFVGRSGREAEA 120 (268)
Q Consensus 109 RFVGRSGRGKsF 120 (268)
-++|.+|.|||=
T Consensus 5 ~~~G~~~~GKst 16 (161)
T TIGR00231 5 VIVGDPNVGKST 16 (161)
T ss_pred EEECCCCCCHHH
Confidence 479999999973
No 73
>PRK13539 cytochrome c biogenesis protein CcmA; Provisional
Probab=32.90 E-value=17 Score=29.81 Aligned_cols=18 Identities=11% Similarity=0.093 Sum_probs=13.6
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
-++|+||.|||=-+.+..
T Consensus 32 ~i~G~nGsGKSTLl~~l~ 49 (207)
T PRK13539 32 VLTGPNGSGKTTLLRLIA 49 (207)
T ss_pred EEECCCCCCHHHHHHHHh
Confidence 468999999996665543
No 74
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=32.81 E-value=82 Score=29.04 Aligned_cols=92 Identities=12% Similarity=0.125 Sum_probs=58.6
Q ss_pred hhhhhHHhhcCCCCccccCCCceEEeecCcccccCCCCCcceEEEEe-eecCCCeEEEEeecCCCcccc-ccccc-----
Q psy3060 22 ERTLDSLLAEHPGELTRTGCPHVVCTVLPTHWRSNKTLPVAFKVVAL-GDVMDGTIVTIRAGNDENYCG-ELRNC----- 94 (268)
Q Consensus 22 er~l~~~l~eh~geLV~T~sP~~lCs~LP~HWRsNKtLP~aFkVvaL-g~VpDGT~Vtv~AGNDEN~~A-ELRN~----- 94 (268)
.+.+.+.|+...|.-+-..+|.+-|. ||. ...+|-+. .++.+|..++|+--....+.- +|.+.
T Consensus 66 ~~~~~~~lA~~~g~~~~~~~P~l~~~-lp~---------~G~Rv~~~~~p~~~g~~~~IRk~~~~~~tl~~l~~~g~~~~ 135 (319)
T PRK13894 66 AQAIIETIAGYHGKEVTRSKPILEGE-LPL---------DGSRFAGQLPPVVPAPTFAIRKKAVAIFTLDQYVERGIMTA 135 (319)
T ss_pred HHHHHHHHHHHcCCcccCCCceEEEE-cCC---------CCEEEEEEcCCcCCCcEEEEECCCCCCCCHHHHHhcCCCCH
Confidence 35777888999999999999966554 341 23455443 456678889999866544332 23211
Q ss_pred --eeeeccceeeecceeeeeccCCCceeece
Q psy3060 95 --TAVMKNQVAKFNDLRFVGRSGREAEASPK 123 (268)
Q Consensus 95 --tAvMKNqVArFNDLRFVGRSGRGKsFtlt 123 (268)
.+.++..+..=..+=++|..|.||+=.+.
T Consensus 136 ~~~~~L~~~v~~~~~ilI~G~tGSGKTTll~ 166 (319)
T PRK13894 136 AQREAIIAAVRAHRNILVIGGTGSGKTTLVN 166 (319)
T ss_pred HHHHHHHHHHHcCCeEEEECCCCCCHHHHHH
Confidence 12344444444557789999999995443
No 75
>PRK11176 lipid transporter ATP-binding/permease protein; Provisional
Probab=32.77 E-value=17 Score=34.25 Aligned_cols=18 Identities=28% Similarity=0.385 Sum_probs=13.5
Q ss_pred eeeeeccCCCceeeceEe
Q psy3060 108 LRFVGRSGREAEASPKDW 125 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~ 125 (268)
.=.||+||.|||==+.+.
T Consensus 372 ~aIvG~sGsGKSTLl~ll 389 (582)
T PRK11176 372 VALVGRSGSGKSTIANLL 389 (582)
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 457999999999655443
No 76
>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=32.71 E-value=17 Score=29.46 Aligned_cols=19 Identities=11% Similarity=0.270 Sum_probs=14.3
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+-.+|+||.|||=-|.+..
T Consensus 29 ~~i~G~nGsGKSTLl~~l~ 47 (210)
T cd03269 29 FGLLGPNGAGKTTTIRMIL 47 (210)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 4468999999996665554
No 77
>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=32.50 E-value=18 Score=29.29 Aligned_cols=18 Identities=17% Similarity=0.134 Sum_probs=13.3
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
=.+|.||.|||=-|.+..
T Consensus 30 ~l~G~nGsGKSTLl~~l~ 47 (213)
T cd03262 30 VIIGPSGSGKSTLLRCIN 47 (213)
T ss_pred EEECCCCCCHHHHHHHHh
Confidence 468999999996555443
No 78
>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=32.46 E-value=18 Score=29.73 Aligned_cols=18 Identities=17% Similarity=0.244 Sum_probs=13.6
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
-.+|.||.|||=-+.+..
T Consensus 30 ~i~G~nGsGKSTLl~~i~ 47 (220)
T cd03265 30 GLLGPNGAGKTTTIKMLT 47 (220)
T ss_pred EEECCCCCCHHHHHHHHh
Confidence 468999999996655543
No 79
>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1.
Probab=32.45 E-value=18 Score=26.57 Aligned_cols=12 Identities=33% Similarity=0.432 Sum_probs=10.2
Q ss_pred eeeeeccCCCce
Q psy3060 108 LRFVGRSGREAE 119 (268)
Q Consensus 108 LRFVGRSGRGKs 119 (268)
+=++|.+|.|||
T Consensus 4 i~iiG~~~vGKT 15 (162)
T cd04138 4 LVVVGAGGVGKS 15 (162)
T ss_pred EEEECCCCCCHH
Confidence 347999999997
No 80
>COG4987 CydC ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]
Probab=32.35 E-value=16 Score=37.40 Aligned_cols=20 Identities=25% Similarity=0.358 Sum_probs=15.2
Q ss_pred eeeeccCCCceeeceEeeee
Q psy3060 109 RFVGRSGREAEASPKDWVGT 128 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v~t 128 (268)
-.+||||+|||=-|.+..+.
T Consensus 368 AIlG~SGsGKSTllqLl~~~ 387 (573)
T COG4987 368 AILGRSGSGKSTLLQLLAGA 387 (573)
T ss_pred EEECCCCCCHHHHHHHHHhc
Confidence 46999999999776665543
No 81
>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein.
Probab=32.26 E-value=18 Score=29.51 Aligned_cols=19 Identities=26% Similarity=0.232 Sum_probs=14.3
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+=.+|.||.|||=-|.+..
T Consensus 32 ~~i~G~nGsGKSTLl~~l~ 50 (216)
T TIGR00960 32 VFLVGHSGAGKSTFLKLIL 50 (216)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 3478999999996665554
No 82
>PLN03232 ABC transporter C family member; Provisional
Probab=32.19 E-value=17 Score=39.45 Aligned_cols=25 Identities=20% Similarity=0.365 Sum_probs=16.0
Q ss_pred cccceeeeccceeeecceeeeeccCCCce
Q psy3060 91 LRNCTAVMKNQVAKFNDLRFVGRSGREAE 119 (268)
Q Consensus 91 LRN~tAvMKNqVArFNDLRFVGRSGRGKs 119 (268)
|+|-+-.++-+ .=.=+|||||.|||
T Consensus 1252 L~~isl~I~~G----ekvaIVG~SGSGKS 1276 (1495)
T PLN03232 1252 LHGLSFFVSPS----EKVGVVGRTGAGKS 1276 (1495)
T ss_pred cccceEEEcCC----CEEEEECCCCCCHH
Confidence 55554444332 22457999999999
No 83
>PRK00098 GTPase RsgA; Reviewed
Probab=32.07 E-value=18 Score=32.27 Aligned_cols=39 Identities=21% Similarity=0.288 Sum_probs=23.2
Q ss_pred EEEEeecCCCccccccccceeeeccceeeecceeeeeccCCCceeece
Q psy3060 76 IVTIRAGNDENYCGELRNCTAVMKNQVAKFNDLRFVGRSGREAEASPK 123 (268)
Q Consensus 76 ~Vtv~AGNDEN~~AELRN~tAvMKNqVArFNDLRFVGRSGRGKsFtlt 123 (268)
.+.++|-+.++ ..+|+... ++.+ .=|+|+||.|||=-|.
T Consensus 144 v~~vSA~~g~g-i~~L~~~l---~gk~-----~~~~G~sgvGKStlin 182 (298)
T PRK00098 144 VLELSAKEGEG-LDELKPLL---AGKV-----TVLAGQSGVGKSTLLN 182 (298)
T ss_pred EEEEeCCCCcc-HHHHHhhc---cCce-----EEEECCCCCCHHHHHH
Confidence 34566666555 34555432 2322 4589999999985443
No 84
>cd03266 ABC_NatA_sodium_exporter NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake. NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilus, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of a single ATP-binding protein and a single intergral membrane protein.
Probab=31.61 E-value=18 Score=29.37 Aligned_cols=19 Identities=11% Similarity=0.207 Sum_probs=13.7
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+-.+|.||.|||=-|.+..
T Consensus 34 ~~i~G~nGsGKSTLl~~l~ 52 (218)
T cd03266 34 TGLLGPNGAGKTTTLRMLA 52 (218)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 4578999999995554443
No 85
>cd04171 SelB SelB subfamily. SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec, and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and eukaryo
Probab=31.60 E-value=20 Score=26.47 Aligned_cols=11 Identities=9% Similarity=0.054 Sum_probs=9.7
Q ss_pred eeeeccCCCce
Q psy3060 109 RFVGRSGREAE 119 (268)
Q Consensus 109 RFVGRSGRGKs 119 (268)
=++|++|.|||
T Consensus 4 ~i~G~~~~GKs 14 (164)
T cd04171 4 GTAGHIDHGKT 14 (164)
T ss_pred EEEecCCCCHH
Confidence 47999999997
No 86
>PRK10790 putative multidrug transporter membrane\ATP-binding components; Provisional
Probab=31.46 E-value=18 Score=34.29 Aligned_cols=19 Identities=21% Similarity=0.375 Sum_probs=13.3
Q ss_pred eeeeccCCCceeeceEeee
Q psy3060 109 RFVGRSGREAEASPKDWVG 127 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v~ 127 (268)
=.||+||.|||==+.+..+
T Consensus 371 aIvG~SGsGKSTLl~lL~g 389 (592)
T PRK10790 371 ALVGHTGSGKSTLASLLMG 389 (592)
T ss_pred EEECCCCCCHHHHHHHHhc
Confidence 4689999999954444433
No 87
>cd00876 Ras Ras family. The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of m
Probab=31.35 E-value=19 Score=26.36 Aligned_cols=13 Identities=23% Similarity=0.271 Sum_probs=10.6
Q ss_pred eeeeccCCCceee
Q psy3060 109 RFVGRSGREAEAS 121 (268)
Q Consensus 109 RFVGRSGRGKsFt 121 (268)
=++|.+|.||+=-
T Consensus 3 ~i~G~~~~GKTsl 15 (160)
T cd00876 3 VVLGAGGVGKSAI 15 (160)
T ss_pred EEECCCCCCHHHH
Confidence 3799999999853
No 88
>cd01120 RecA-like_NTPases RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Probab=31.33 E-value=18 Score=26.42 Aligned_cols=16 Identities=13% Similarity=0.198 Sum_probs=12.6
Q ss_pred eeeccCCCceeeceEe
Q psy3060 110 FVGRSGREAEASPKDW 125 (268)
Q Consensus 110 FVGRSGRGKsFtlti~ 125 (268)
+.|.+|.|||.-+...
T Consensus 4 i~G~~G~GKT~l~~~i 19 (165)
T cd01120 4 VFGPTGSGKTTLALQL 19 (165)
T ss_pred EeCCCCCCHHHHHHHH
Confidence 5799999999865443
No 89
>cd00844 MPP_Dbr1_N Dbr1 RNA lariat debranching enzyme, N-terminal metallophosphatase domain. Dbr1 is an RNA lariat debranching enzyme that hydrolyzes 2'-5' phosphodiester bonds at the branch points of excised intron lariats. This alignment model represents the N-terminal metallophosphatase domain of Dbr1. This domain belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal s
Probab=31.16 E-value=83 Score=28.29 Aligned_cols=44 Identities=25% Similarity=0.232 Sum_probs=30.6
Q ss_pred EEeecCCCccc--------ccccc-ceeeeccceeeecceeeeeccCCCceee
Q psy3060 78 TIRAGNDENYC--------GELRN-CTAVMKNQVAKFNDLRFVGRSGREAEAS 121 (268)
Q Consensus 78 tv~AGNDEN~~--------AELRN-~tAvMKNqVArFNDLRFVGRSGRGKsFt 121 (268)
..--||-|+.. .+++. ..-.|+-+|-+++.||+.|=||..|.+.
T Consensus 77 ~fi~GNHE~~~~l~~l~~gg~v~~Ni~~Lg~~~v~~~~GlrIaGLsG~~~~~~ 129 (262)
T cd00844 77 IFIGGNHEASNYLWELPYGGWVAPNIYYLGYAGVVNFGGLRIAGLSGIYKSHD 129 (262)
T ss_pred EEECCCCCCHHHHHhhcCCCeecCcEEEecCCCEEEECCeEEEEecccccccc
Confidence 44568888732 23333 3344566899999999999999988664
No 90
>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=31.03 E-value=19 Score=29.51 Aligned_cols=18 Identities=22% Similarity=0.209 Sum_probs=13.4
Q ss_pred eeeeeccCCCceeeceEe
Q psy3060 108 LRFVGRSGREAEASPKDW 125 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~ 125 (268)
+-.+|.||.|||=-|.+.
T Consensus 33 ~~i~G~nGsGKSTLl~~l 50 (220)
T cd03293 33 VALVGPSGCGKSTLLRII 50 (220)
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 457899999998655443
No 91
>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional
Probab=30.90 E-value=19 Score=29.56 Aligned_cols=19 Identities=16% Similarity=0.235 Sum_probs=13.8
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+-.+|+||.|||=-+.+..
T Consensus 39 ~~i~G~nGsGKSTLl~~i~ 57 (228)
T PRK10584 39 IALIGESGSGKSTLLAILA 57 (228)
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 3468999999996555543
No 92
>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane components (NikB and NikC), and two ATPase (NikD and NikE). The NikABCDE transporter is synthesized under anaerobic conditions to meet the increased demand for nickel resulting from hydrogenase synthesis. The molecular mechanism of nickel uptake in many bacteria and most archaea is not known. Many other members of this ABC family are also involved in the uptake of dipeptides and oligopeptides. The oligopeptide transport system (Opp) is a five-component ABC transport composed of a membrane-anchored substrate binding proteins (SRP), OppA, two transmembrane proteins, OppB and OppC, and two ATP-binding domains, OppD and OppF.
Probab=30.42 E-value=20 Score=29.20 Aligned_cols=19 Identities=26% Similarity=0.426 Sum_probs=14.0
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+=.+|.||.|||=-|.+..
T Consensus 34 ~~i~G~nGsGKSTLl~~l~ 52 (228)
T cd03257 34 LGLVGESGSGKSTLARAIL 52 (228)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 3468999999996655544
No 93
>PRK14241 phosphate transporter ATP-binding protein; Provisional
Probab=30.39 E-value=20 Score=30.34 Aligned_cols=20 Identities=20% Similarity=0.262 Sum_probs=14.8
Q ss_pred eeeeeccCCCceeeceEeee
Q psy3060 108 LRFVGRSGREAEASPKDWVG 127 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v~ 127 (268)
+=++|.||.|||=-|.+..+
T Consensus 33 ~~i~G~nGsGKSTLl~~laG 52 (258)
T PRK14241 33 TAFIGPSGCGKSTVLRTLNR 52 (258)
T ss_pred EEEECCCCCCHHHHHHHHhc
Confidence 34689999999976655544
No 94
>COG1135 AbcC ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=30.31 E-value=19 Score=34.86 Aligned_cols=14 Identities=21% Similarity=0.271 Sum_probs=11.1
Q ss_pred eeeeccCCCceeec
Q psy3060 109 RFVGRSGREAEASP 122 (268)
Q Consensus 109 RFVGRSGRGKsFtl 122 (268)
=.+||||.|||==|
T Consensus 36 GIIG~SGAGKSTLi 49 (339)
T COG1135 36 GIIGYSGAGKSTLL 49 (339)
T ss_pred EEEcCCCCcHHHHH
Confidence 36999999999544
No 95
>cd04139 RalA_RalB RalA/RalB subfamily. The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exo
Probab=30.24 E-value=23 Score=26.09 Aligned_cols=12 Identities=25% Similarity=0.360 Sum_probs=10.5
Q ss_pred eeeeeccCCCce
Q psy3060 108 LRFVGRSGREAE 119 (268)
Q Consensus 108 LRFVGRSGRGKs 119 (268)
+-++|.+|.|||
T Consensus 3 i~~~G~~~~GKT 14 (164)
T cd04139 3 VIVVGAGGVGKS 14 (164)
T ss_pred EEEECCCCCCHH
Confidence 458999999998
No 96
>cd01860 Rab5_related Rab5-related subfamily. This subfamily includes Rab5 and Rab22 of mammals, Ypt51/Ypt52/Ypt53 of yeast, and RabF of plants. The members of this subfamily are involved in endocytosis and endocytic-sorting pathways. In mammals, Rab5 GTPases localize to early endosomes and regulate fusion of clathrin-coated vesicles to early endosomes and fusion between early endosomes. In yeast, Ypt51p family members similarly regulate membrane trafficking through prevacuolar compartments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence mo
Probab=30.22 E-value=20 Score=26.69 Aligned_cols=14 Identities=21% Similarity=0.256 Sum_probs=11.2
Q ss_pred eeeeeccCCCceee
Q psy3060 108 LRFVGRSGREAEAS 121 (268)
Q Consensus 108 LRFVGRSGRGKsFt 121 (268)
+-++|++|.|||=-
T Consensus 4 i~v~G~~~~GKSsl 17 (163)
T cd01860 4 LVLLGDSSVGKSSL 17 (163)
T ss_pred EEEECCCCCCHHHH
Confidence 45899999999843
No 97
>PLN03130 ABC transporter C family member; Provisional
Probab=30.18 E-value=19 Score=39.66 Aligned_cols=13 Identities=31% Similarity=0.618 Sum_probs=10.9
Q ss_pred eeeeeccCCCcee
Q psy3060 108 LRFVGRSGREAEA 120 (268)
Q Consensus 108 LRFVGRSGRGKsF 120 (268)
+=+|||||.|||=
T Consensus 1268 VaIVGrSGSGKST 1280 (1622)
T PLN03130 1268 VGIVGRTGAGKSS 1280 (1622)
T ss_pred EEEECCCCCCHHH
Confidence 4579999999983
No 98
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=30.17 E-value=23 Score=32.95 Aligned_cols=15 Identities=20% Similarity=0.299 Sum_probs=12.1
Q ss_pred eeeeeccCCCceeec
Q psy3060 108 LRFVGRSGREAEASP 122 (268)
Q Consensus 108 LRFVGRSGRGKsFtl 122 (268)
+-++|.||+|||=-|
T Consensus 31 v~iiGpSGSGKSTlL 45 (240)
T COG1126 31 VVIIGPSGSGKSTLL 45 (240)
T ss_pred EEEECCCCCCHHHHH
Confidence 457999999999554
No 99
>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=30.05 E-value=20 Score=29.48 Aligned_cols=18 Identities=11% Similarity=0.078 Sum_probs=13.7
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
=.+|.||.|||=-|.+..
T Consensus 30 ~l~G~nGsGKSTLl~~l~ 47 (236)
T cd03219 30 GLIGPNGAGKTTLFNLIS 47 (236)
T ss_pred EEECCCCCCHHHHHHHHc
Confidence 468999999996655544
No 100
>TIGR03796 NHPM_micro_ABC1 NHPM bacteriocin system ABC transporter, peptidase/ATP-binding protein. This protein describes an multidomain ABC transporter subunit that is one of three protein families associated with some regularity with a distinctive family of putative bacteriocins. It includes a bacteriocin-processing peptidase domain at the N-terminus. Model TIGR03793 describes a conserved propeptide region for this bacteriocin family, unusual because it shows obvious homology a region of the enzyme nitrile hydratase up to the classic Gly-Gly cleavage motif. This family is therefore predicted to be a subunit of a bacteriocin processing and export system characteristic to this system that we designate NHPM, Nitrile Hydratase Propeptide Microcin.
Probab=29.97 E-value=20 Score=34.92 Aligned_cols=18 Identities=28% Similarity=0.289 Sum_probs=13.1
Q ss_pred eeeeeccCCCceeeceEe
Q psy3060 108 LRFVGRSGREAEASPKDW 125 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~ 125 (268)
.-.||+||.|||=-+.+.
T Consensus 508 vaIvG~sGsGKSTLlklL 525 (710)
T TIGR03796 508 VALVGGSGSGKSTIAKLV 525 (710)
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 457999999999444443
No 101
>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE. Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.
Probab=29.88 E-value=21 Score=29.43 Aligned_cols=19 Identities=21% Similarity=0.251 Sum_probs=14.2
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+-.+|.||.|||=-|.+..
T Consensus 29 ~~l~G~nGsGKSTLl~~l~ 47 (230)
T TIGR03410 29 TCVLGRNGVGKTTLLKTLM 47 (230)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 4468999999996665544
No 102
>cd04106 Rab23_lke Rab23-like subfamily. Rab23 is a member of the Rab family of small GTPases. In mouse, Rab23 has been shown to function as a negative regulator in the sonic hedgehog (Shh) signalling pathway. Rab23 mediates the activity of Gli2 and Gli3, transcription factors that regulate Shh signaling in the spinal cord, primarily by preventing Gli2 activation in the absence of Shh ligand. Rab23 also regulates a step in the cytoplasmic signal transduction pathway that mediates the effect of Smoothened (one of two integral membrane proteins that are essential components of the Shh signaling pathway in vertebrates). In humans, Rab23 is expressed in the retina. Mice contain an isoform that shares 93% sequence identity with the human Rab23 and an alternative splicing isoform that is specific to the brain. This isoform causes the murine open brain phenotype, indicating it may have a role in the development of the central nervous system. GTPase activating proteins (GAPs) interact with G
Probab=29.81 E-value=21 Score=26.59 Aligned_cols=12 Identities=17% Similarity=0.213 Sum_probs=10.1
Q ss_pred eeeeeccCCCce
Q psy3060 108 LRFVGRSGREAE 119 (268)
Q Consensus 108 LRFVGRSGRGKs 119 (268)
+=++|.+|.|||
T Consensus 3 v~~vG~~~~GKT 14 (162)
T cd04106 3 VIVVGNGNVGKS 14 (162)
T ss_pred EEEECCCCCCHH
Confidence 347999999996
No 103
>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=29.79 E-value=21 Score=30.18 Aligned_cols=14 Identities=21% Similarity=0.252 Sum_probs=11.2
Q ss_pred eeeeccCCCceeec
Q psy3060 109 RFVGRSGREAEASP 122 (268)
Q Consensus 109 RFVGRSGRGKsFtl 122 (268)
=.+|.||.|||=-+
T Consensus 25 ~l~G~sGsGKSTL~ 38 (226)
T cd03270 25 VITGVSGSGKSSLA 38 (226)
T ss_pred EEEcCCCCCHHHHH
Confidence 36899999999553
No 104
>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=29.69 E-value=17 Score=35.77 Aligned_cols=18 Identities=22% Similarity=0.270 Sum_probs=14.9
Q ss_pred eeeeeccCCCceeeceEe
Q psy3060 108 LRFVGRSGREAEASPKDW 125 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~ 125 (268)
.=.+|.||.||||.+.-.
T Consensus 433 ~~I~G~tGsGKS~~~~~l 450 (797)
T TIGR02746 433 IAVVGGSGAGKSFFMQEL 450 (797)
T ss_pred eEEEcCCCCCHHHHHHHH
Confidence 568999999999998543
No 105
>cd01861 Rab6 Rab6 subfamily. Rab6 is involved in microtubule-dependent transport pathways through the Golgi and from endosomes to the Golgi. Rab6A of mammals is implicated in retrograde transport through the Golgi stack, and is also required for a slow, COPI-independent, retrograde transport pathway from the Golgi to the endoplasmic reticulum (ER). This pathway may allow Golgi residents to be recycled through the ER for scrutiny by ER quality-control systems. Yeast Ypt6p, the homolog of the mammalian Rab6 GTPase, is not essential for cell viability. Ypt6p acts in endosome-to-Golgi, in intra-Golgi retrograde transport, and possibly also in Golgi-to-ER trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate
Probab=29.68 E-value=21 Score=26.55 Aligned_cols=12 Identities=17% Similarity=0.321 Sum_probs=10.2
Q ss_pred eeeeccCCCcee
Q psy3060 109 RFVGRSGREAEA 120 (268)
Q Consensus 109 RFVGRSGRGKsF 120 (268)
=++|++|.|||=
T Consensus 4 ~liG~~~~GKSs 15 (161)
T cd01861 4 VFLGDQSVGKTS 15 (161)
T ss_pred EEECCCCCCHHH
Confidence 479999999983
No 106
>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=29.64 E-value=29 Score=28.25 Aligned_cols=29 Identities=24% Similarity=0.310 Sum_probs=17.0
Q ss_pred cccceeee-ccceeeecc--eeeeeccCCCce
Q psy3060 91 LRNCTAVM-KNQVAKFND--LRFVGRSGREAE 119 (268)
Q Consensus 91 LRN~tAvM-KNqVArFND--LRFVGRSGRGKs 119 (268)
|.|..... ++..-.|+. .-|+|.+|.|||
T Consensus 7 i~nFr~~~~~~~~~~~~~~~~~i~G~NGsGKS 38 (220)
T PF02463_consen 7 IENFRNFKGKNAELSFSPGLNVIVGPNGSGKS 38 (220)
T ss_dssp EESBTTC-SCEEEEETTSSEEEEEESTTSSHH
T ss_pred EcCceEEecCeEEEecCCCCEEEEcCCCCCHH
Confidence 34444443 344445555 567899999987
No 107
>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=29.61 E-value=21 Score=28.69 Aligned_cols=19 Identities=16% Similarity=0.034 Sum_probs=14.4
Q ss_pred eeeeccCCCceeeceEeee
Q psy3060 109 RFVGRSGREAEASPKDWVG 127 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v~ 127 (268)
=.+|.||.|||=-|.+..+
T Consensus 28 ~i~G~nGsGKSTLl~~l~G 46 (206)
T TIGR03608 28 AIIGESGSGKSTLLNIIGL 46 (206)
T ss_pred EEECCCCCCHHHHHHHHhc
Confidence 4689999999976665543
No 108
>PRK14245 phosphate ABC transporter ATP-binding protein; Provisional
Probab=29.56 E-value=21 Score=29.96 Aligned_cols=17 Identities=24% Similarity=0.366 Sum_probs=13.3
Q ss_pred eeeeccCCCceeeceEe
Q psy3060 109 RFVGRSGREAEASPKDW 125 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~ 125 (268)
=.+|+||.|||=-|.+.
T Consensus 33 ~i~G~nGsGKSTLl~~i 49 (250)
T PRK14245 33 AFIGPSGCGKSTFLRLF 49 (250)
T ss_pred EEECCCCCCHHHHHHHH
Confidence 36899999999666554
No 109
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=29.45 E-value=21 Score=28.88 Aligned_cols=17 Identities=18% Similarity=0.259 Sum_probs=12.6
Q ss_pred eeeeccCCCceeeceEe
Q psy3060 109 RFVGRSGREAEASPKDW 125 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~ 125 (268)
=++|-||.|||=-+...
T Consensus 6 ~l~G~sGsGKsTl~~~l 22 (186)
T PRK10078 6 WLMGPSGSGKDSLLAAL 22 (186)
T ss_pred EEECCCCCCHHHHHHHH
Confidence 37899999998544443
No 110
>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=29.43 E-value=21 Score=29.01 Aligned_cols=17 Identities=24% Similarity=0.190 Sum_probs=12.9
Q ss_pred eeeeccCCCceeeceEe
Q psy3060 109 RFVGRSGREAEASPKDW 125 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~ 125 (268)
=.+|.||.|||=-|.+.
T Consensus 34 ~l~G~nGsGKSTLl~~i 50 (218)
T cd03255 34 AIVGPSGSGKSTLLNIL 50 (218)
T ss_pred EEEcCCCCCHHHHHHHH
Confidence 46899999999655544
No 111
>TIGR02204 MsbA_rel ABC transporter, permease/ATP-binding protein. This protein is related to a Proteobacterial ATP transporter that exports lipid A and to eukaryotic P-glycoproteins.
Probab=29.42 E-value=21 Score=33.52 Aligned_cols=15 Identities=27% Similarity=0.317 Sum_probs=11.4
Q ss_pred eeeeeccCCCceeec
Q psy3060 108 LRFVGRSGREAEASP 122 (268)
Q Consensus 108 LRFVGRSGRGKsFtl 122 (268)
.=.+|+||.|||==+
T Consensus 369 i~IvG~sGsGKSTLl 383 (576)
T TIGR02204 369 VALVGPSGAGKSTLF 383 (576)
T ss_pred EEEECCCCCCHHHHH
Confidence 346999999998433
No 112
>PRK15467 ethanolamine utilization protein EutP; Provisional
Probab=29.37 E-value=21 Score=28.22 Aligned_cols=15 Identities=27% Similarity=0.379 Sum_probs=11.8
Q ss_pred eeeeeccCCCceeec
Q psy3060 108 LRFVGRSGREAEASP 122 (268)
Q Consensus 108 LRFVGRSGRGKsFtl 122 (268)
.=++|++|.|||=-+
T Consensus 4 i~~iG~~~~GKstl~ 18 (158)
T PRK15467 4 IAFVGAVGAGKTTLF 18 (158)
T ss_pred EEEECCCCCCHHHHH
Confidence 458999999998443
No 113
>KOG3587|consensus
Probab=29.32 E-value=48 Score=27.03 Aligned_cols=21 Identities=10% Similarity=-0.152 Sum_probs=19.2
Q ss_pred CCceeeceEeeeeeeeEEeee
Q psy3060 116 REAEASPKDWVGTLIWLIGIK 136 (268)
Q Consensus 116 RGKsFtlti~v~t~~~~i~v~ 136 (268)
+|+.|.|+|.+...+-.|.|.
T Consensus 86 ~g~~F~l~I~~~~~~~~I~VN 106 (143)
T KOG3587|consen 86 PGQPFDLTILVEEDKFQIFVN 106 (143)
T ss_pred CCCeEEEEEEEccCeEEEEEC
Confidence 589999999999999999984
No 114
>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]
Probab=29.30 E-value=24 Score=32.82 Aligned_cols=18 Identities=28% Similarity=0.350 Sum_probs=13.2
Q ss_pred eeeeeccCCCceeeceEe
Q psy3060 108 LRFVGRSGREAEASPKDW 125 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~ 125 (268)
|=.||.||+|||=-..+.
T Consensus 36 lgivGeSGsGKSTL~r~l 53 (252)
T COG1124 36 LGIVGESGSGKSTLARLL 53 (252)
T ss_pred EEEEcCCCCCHHHHHHHH
Confidence 456999999999544433
No 115
>TIGR01184 ntrCD nitrate transport ATP-binding subunits C and D. This model describes the ATP binding subunits of nitrate transport in bacteria and archaea. This protein belongs to the ATP-binding cassette (ABC) superfamily. It is thought that the two subunits encoded by ntrC and ntrD form the binding surface for interaction with ATP. This model is restricted in identifying ATP binding subunit associated with the nitrate transport. Nitrate assimilation is aided by other proteins derived from the operon which among others include products of ntrA - a regulatory protein; ntrB - a hydropbobic transmembrane permease and narB - a reductase.
Probab=29.24 E-value=21 Score=29.81 Aligned_cols=17 Identities=18% Similarity=0.176 Sum_probs=13.0
Q ss_pred eeeeccCCCceeeceEe
Q psy3060 109 RFVGRSGREAEASPKDW 125 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~ 125 (268)
=.+|+||.|||=-+.+.
T Consensus 15 ~i~G~nGsGKSTLl~~l 31 (230)
T TIGR01184 15 SLIGHSGCGKSTLLNLI 31 (230)
T ss_pred EEECCCCCCHHHHHHHH
Confidence 46899999998655544
No 116
>PRK09825 idnK D-gluconate kinase; Provisional
Probab=29.24 E-value=21 Score=29.40 Aligned_cols=17 Identities=18% Similarity=0.186 Sum_probs=13.2
Q ss_pred eeeeeccCCCceeeceE
Q psy3060 108 LRFVGRSGREAEASPKD 124 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti 124 (268)
+-++|.||.|||--+.+
T Consensus 6 i~l~G~sGsGKSTl~~~ 22 (176)
T PRK09825 6 YILMGVSGSGKSLIGSK 22 (176)
T ss_pred EEEECCCCCCHHHHHHH
Confidence 35799999999965543
No 117
>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=29.23 E-value=21 Score=29.27 Aligned_cols=18 Identities=11% Similarity=0.137 Sum_probs=13.4
Q ss_pred eeeeeccCCCceeeceEe
Q psy3060 108 LRFVGRSGREAEASPKDW 125 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~ 125 (268)
+-.+|.||.|||=-|.+.
T Consensus 29 ~~l~G~nGsGKSTLl~~l 46 (232)
T cd03218 29 VGLLGPNGAGKTTTFYMI 46 (232)
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 457899999999655444
No 118
>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=29.20 E-value=21 Score=29.38 Aligned_cols=18 Identities=22% Similarity=0.320 Sum_probs=13.1
Q ss_pred eeeeeccCCCceeeceEe
Q psy3060 108 LRFVGRSGREAEASPKDW 125 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~ 125 (268)
+-.+|.||.|||=-+.+.
T Consensus 34 ~~l~G~nGsGKSTLl~~l 51 (233)
T cd03258 34 FGIIGRSGAGKSTLIRCI 51 (233)
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 346899999999554443
No 119
>TIGR00957 MRP_assoc_pro multi drug resistance-associated protein (MRP). This model describes multi drug resistance-associated protein (MRP) in eukaryotes. The multidrug resistance-associated protein is an integral membrane protein that causes multidrug resistance when overexpressed in mammalian cells. It belongs to ABC transporter superfamily. The protein topology and function was experimentally demonstrated by epitope tagging and immunofluorescence. Insertion of tags in the critical regions associated with drug efflux, abrogated its function. The C-terminal domain seem to highly conserved.
Probab=29.12 E-value=21 Score=38.92 Aligned_cols=26 Identities=23% Similarity=0.442 Sum_probs=16.9
Q ss_pred ccccceeeeccceeeecceeeeeccCCCce
Q psy3060 90 ELRNCTAVMKNQVAKFNDLRFVGRSGREAE 119 (268)
Q Consensus 90 ELRN~tAvMKNqVArFNDLRFVGRSGRGKs 119 (268)
-|+|-+-.++.+ .=+=+|||||.|||
T Consensus 1301 vL~~is~~I~~G----ekiaIVGrTGsGKS 1326 (1522)
T TIGR00957 1301 VLRHINVTIHGG----EKVGIVGRTGAGKS 1326 (1522)
T ss_pred cccceeEEEcCC----CEEEEECCCCCCHH
Confidence 355555444433 23558999999999
No 120
>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. 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=29.07 E-value=22 Score=28.96 Aligned_cols=19 Identities=21% Similarity=0.202 Sum_probs=13.5
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+=.+|.||.|||=-+.+..
T Consensus 29 ~~i~G~nGsGKSTLl~~l~ 47 (213)
T cd03259 29 LALLGPSGCGKTTLLRLIA 47 (213)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 3468999999995555443
No 121
>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways. Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process
Probab=29.07 E-value=21 Score=30.00 Aligned_cols=12 Identities=25% Similarity=0.534 Sum_probs=10.3
Q ss_pred eeeeeccCCCce
Q psy3060 108 LRFVGRSGREAE 119 (268)
Q Consensus 108 LRFVGRSGRGKs 119 (268)
+=|||++|.||+
T Consensus 4 imliG~~g~GKT 15 (143)
T PF10662_consen 4 IMLIGPSGSGKT 15 (143)
T ss_pred EEEECCCCCCHH
Confidence 348999999997
No 122
>COG4988 CydD ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]
Probab=29.00 E-value=21 Score=36.30 Aligned_cols=31 Identities=19% Similarity=0.057 Sum_probs=20.0
Q ss_pred ecceeeeeccCCCceeeceEeee---eeeeEEee
Q psy3060 105 FNDLRFVGRSGREAEASPKDWVG---TLIWLIGI 135 (268)
Q Consensus 105 FNDLRFVGRSGRGKsFtlti~v~---t~~~~i~v 135 (268)
++-.=+||+||.|||=-+..-.+ -+.-.|++
T Consensus 347 g~~talvG~SGaGKSTLl~lL~G~~~~~~G~I~v 380 (559)
T COG4988 347 GQLTALVGASGAGKSTLLNLLLGFLAPTQGEIRV 380 (559)
T ss_pred CcEEEEECCCCCCHHHHHHHHhCcCCCCCceEEE
Confidence 33445899999999966554432 24555665
No 123
>cd03231 ABC_CcmA_heme_exporter CcmA, the ATP-binding component of the bacterial CcmAB transporter. The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH). CcmE is a periplasmic heme chaperone that binds heme covalently and transfers it onto apocytochrome c in the presence of CcmF, CcmG, and CcmH. The CcmAB proteins represent an ABC transporter and the CcmCD proteins participate in heme transfer to CcmE.
Probab=28.97 E-value=22 Score=29.05 Aligned_cols=19 Identities=16% Similarity=0.209 Sum_probs=13.9
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+-++|+||.|||=-|.+..
T Consensus 29 ~~i~G~nGsGKSTLl~~l~ 47 (201)
T cd03231 29 LQVTGPNGSGKTTLLRILA 47 (201)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 3468999999996655443
No 124
>PRK10522 multidrug transporter membrane component/ATP-binding component; Provisional
Probab=28.61 E-value=22 Score=33.70 Aligned_cols=18 Identities=17% Similarity=0.196 Sum_probs=13.3
Q ss_pred eeeeeccCCCceeeceEe
Q psy3060 108 LRFVGRSGREAEASPKDW 125 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~ 125 (268)
.-+||+||.|||=-+.+-
T Consensus 352 ~aivG~sGsGKSTL~~ll 369 (547)
T PRK10522 352 LFLIGGNGSGKSTLAMLL 369 (547)
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 457999999999544443
No 125
>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and lipid export. The MRP-like family, similar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains each composed of six transmembrane (TM) helices and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=28.59 E-value=30 Score=28.33 Aligned_cols=18 Identities=17% Similarity=0.174 Sum_probs=13.1
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
=.+|.||.|||=-|.+..
T Consensus 33 ~i~G~nGsGKSTLl~~l~ 50 (229)
T cd03254 33 AIVGPTGAGKTTLINLLM 50 (229)
T ss_pred EEECCCCCCHHHHHHHHh
Confidence 358999999996555443
No 126
>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.
Probab=28.56 E-value=23 Score=28.31 Aligned_cols=19 Identities=21% Similarity=0.279 Sum_probs=15.0
Q ss_pred eeeccCCCceeeceEeeee
Q psy3060 110 FVGRSGREAEASPKDWVGT 128 (268)
Q Consensus 110 FVGRSGRGKsFtlti~v~t 128 (268)
++|.||.|||=-|.+..+-
T Consensus 31 l~G~nGsGKSTLl~~i~G~ 49 (163)
T cd03216 31 LLGENGAGKSTLMKILSGL 49 (163)
T ss_pred EECCCCCCHHHHHHHHhCC
Confidence 6899999999777766543
No 127
>cd01864 Rab19 Rab19 subfamily. Rab19 proteins are associated with Golgi stacks. Similarity analysis indicated that Rab41 is closely related to Rab19. However, the function of these Rabs is not yet chracterized. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.
Probab=28.52 E-value=23 Score=26.91 Aligned_cols=12 Identities=17% Similarity=0.310 Sum_probs=10.3
Q ss_pred eeeeeccCCCce
Q psy3060 108 LRFVGRSGREAE 119 (268)
Q Consensus 108 LRFVGRSGRGKs 119 (268)
+=++|++|.|||
T Consensus 6 v~vvG~~~~GKT 17 (165)
T cd01864 6 IILIGDSNVGKT 17 (165)
T ss_pred EEEECCCCCCHH
Confidence 347999999998
No 128
>PRK10418 nikD nickel transporter ATP-binding protein NikD; Provisional
Probab=28.47 E-value=22 Score=30.04 Aligned_cols=18 Identities=28% Similarity=0.277 Sum_probs=13.6
Q ss_pred eeeeeccCCCceeeceEe
Q psy3060 108 LRFVGRSGREAEASPKDW 125 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~ 125 (268)
+=++|+||.|||=-+.+.
T Consensus 32 ~~l~G~nGsGKSTLl~~l 49 (254)
T PRK10418 32 LALVGGSGSGKSLTCAAA 49 (254)
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 347899999999655554
No 129
>cd03234 ABCG_White The White subfamily represents ABC transporters homologous to the Drosophila white gene, which acts as a dimeric importer for eye pigment precursors. The eye pigmentation of Drosophila is developed from the synthesis and deposition in the cells of red pigments, which are synthesized from guanine, and brown pigments, which are synthesized from tryptophan. The pigment precursors are encoded by the white, brown, and scarlet genes, respectively. Evidence from genetic and biochemical studies suggest that the White and Brown proteins function as heterodimers to import guanine, while the White and Scarlet proteins function to import tryptophan. However, a recent study also suggests that White may be involved in the transport of a metabolite, such as 3-hydroxykynurenine, across intracellular membranes. Mammalian ABC transporters belonging to the White subfamily (ABCG1, ABCG5, and ABCG8) have been shown to be involved in the regulation of lipid-trafficking mechanisms in
Probab=28.41 E-value=23 Score=29.26 Aligned_cols=21 Identities=19% Similarity=0.298 Sum_probs=14.9
Q ss_pred eeeeeccCCCceeeceEeeee
Q psy3060 108 LRFVGRSGREAEASPKDWVGT 128 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v~t 128 (268)
+=++|.||.|||=-+.+..+.
T Consensus 36 ~~l~G~nGsGKSTLlk~l~G~ 56 (226)
T cd03234 36 MAILGSSGSGKTTLLDAISGR 56 (226)
T ss_pred EEEECCCCCCHHHHHHHHhCc
Confidence 457999999998555554433
No 130
>PRK14249 phosphate ABC transporter ATP-binding protein; Provisional
Probab=28.24 E-value=23 Score=29.76 Aligned_cols=19 Identities=16% Similarity=0.169 Sum_probs=14.1
Q ss_pred eeeeccCCCceeeceEeee
Q psy3060 109 RFVGRSGREAEASPKDWVG 127 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v~ 127 (268)
=.+|+||.|||=-|.+..+
T Consensus 34 ~i~G~nGsGKSTLl~~l~G 52 (251)
T PRK14249 34 AIIGPSGCGKSTLLRALNR 52 (251)
T ss_pred EEECCCCCCHHHHHHHHhc
Confidence 3689999999966655543
No 131
>TIGR01271 CFTR_protein cystic fibrosis transmembrane conductor regulator (CFTR). The model describes the cystis fibrosis transmembrane conductor regulator (CFTR) in eukaryotes. The principal role of this protein is chloride ion conductance. The protein is predicted to consist of 12 transmembrane domains. Mutations or lesions in the genetic loci have been linked to the aetiology of asthma, bronchiectasis, chronic obstructive pulmonary disease etc. Disease-causing mutations have been studied by 36Cl efflux assays in vitro cell cultures and electrophysiology, all of which point to the impairment of chloride channel stability and not the biosynthetic processing per se.
Probab=28.20 E-value=22 Score=38.70 Aligned_cols=12 Identities=25% Similarity=0.634 Sum_probs=10.6
Q ss_pred eeeeeccCCCce
Q psy3060 108 LRFVGRSGREAE 119 (268)
Q Consensus 108 LRFVGRSGRGKs 119 (268)
+-+|||||.|||
T Consensus 1248 vaIvGrSGsGKS 1259 (1490)
T TIGR01271 1248 VGLLGRTGSGKS 1259 (1490)
T ss_pred EEEECCCCCCHH
Confidence 457999999998
No 132
>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=28.20 E-value=28 Score=28.63 Aligned_cols=14 Identities=14% Similarity=0.283 Sum_probs=11.9
Q ss_pred eeccCCCceeeceE
Q psy3060 111 VGRSGREAEASPKD 124 (268)
Q Consensus 111 VGRSGRGKsFtlti 124 (268)
.|-+|.||+||+.-
T Consensus 30 yG~tGsGKT~Tm~G 43 (186)
T cd01363 30 YGQTGSGKTYTMEG 43 (186)
T ss_pred ECCCCCcceEecCC
Confidence 68999999998753
No 133
>PRK05541 adenylylsulfate kinase; Provisional
Probab=28.19 E-value=23 Score=28.03 Aligned_cols=14 Identities=14% Similarity=0.278 Sum_probs=11.4
Q ss_pred eeeeeccCCCceee
Q psy3060 108 LRFVGRSGREAEAS 121 (268)
Q Consensus 108 LRFVGRSGRGKsFt 121 (268)
+-|+|-||.|||--
T Consensus 10 I~i~G~~GsGKst~ 23 (176)
T PRK05541 10 IWITGLAGSGKTTI 23 (176)
T ss_pred EEEEcCCCCCHHHH
Confidence 45899999999743
No 134
>PRK13652 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=28.17 E-value=23 Score=30.67 Aligned_cols=18 Identities=11% Similarity=0.250 Sum_probs=14.2
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
=++|+||.|||=-+.+..
T Consensus 34 ~i~G~NGsGKSTLl~~l~ 51 (277)
T PRK13652 34 AVIGPNGAGKSTLFRHFN 51 (277)
T ss_pred EEECCCCCCHHHHHHHHh
Confidence 368999999997666654
No 135
>cd00879 Sar1 Sar1 subfamily. Sar1 is an essential component of COPII vesicle coats involved in export of cargo from the ER. The GTPase activity of Sar1 functions as a molecular switch to control protein-protein and protein-lipid interactions that direct vesicle budding from the ER. Activation of the GDP to the GTP-bound form of Sar1 involves the membrane-associated guanine nucleotide exchange factor (GEF) Sec12. Sar1 is unlike all Ras superfamily GTPases that use either myristoyl or prenyl groups to direct membrane association and function, in that Sar1 lacks such modification. Instead, Sar1 contains a unique nine-amino-acid N-terminal extension. This extension contains an evolutionarily conserved cluster of bulky hydrophobic amino acids, referred to as the Sar1-N-terminal activation recruitment (STAR) motif. The STAR motif mediates the recruitment of Sar1 to ER membranes and facilitates its interaction with mammalian Sec12 GEF leading to activation.
Probab=28.13 E-value=23 Score=27.57 Aligned_cols=13 Identities=15% Similarity=0.345 Sum_probs=10.9
Q ss_pred eeeeeccCCCcee
Q psy3060 108 LRFVGRSGREAEA 120 (268)
Q Consensus 108 LRFVGRSGRGKsF 120 (268)
+=++|.+|.|||=
T Consensus 22 i~ilG~~~~GKSt 34 (190)
T cd00879 22 ILFLGLDNAGKTT 34 (190)
T ss_pred EEEECCCCCCHHH
Confidence 4589999999984
No 136
>PRK04213 GTP-binding protein; Provisional
Probab=28.11 E-value=23 Score=28.05 Aligned_cols=13 Identities=38% Similarity=0.583 Sum_probs=11.3
Q ss_pred eeeeeccCCCcee
Q psy3060 108 LRFVGRSGREAEA 120 (268)
Q Consensus 108 LRFVGRSGRGKsF 120 (268)
+-++|++|.|||=
T Consensus 12 i~i~G~~~~GKSs 24 (201)
T PRK04213 12 IVFVGRSNVGKST 24 (201)
T ss_pred EEEECCCCCCHHH
Confidence 5689999999984
No 137
>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is ubiquitously expressed in mouse tissues and cells, where it is localized to the medial Golgi cisternae. It colocalizes with alpha-mannose II. Together with the other cisternal Rabs, Rab6A and Rab6A', it is believed to regulate the Golgi response to stress and is likely a molecular target in stress-activated signaling pathways. Rab33A (previously known as S10) is expressed primarily in the brain and immune system cells. In humans, it is located on the X chromosome at Xq26 and its expression is down-regulated in tuberculosis patients. Experimental evidence suggests that Rab33A is a novel CD8+ T cell factor that likely plays a role in tuberculosis disease processes. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine
Probab=28.11 E-value=23 Score=27.30 Aligned_cols=12 Identities=17% Similarity=0.257 Sum_probs=10.4
Q ss_pred eeeeeccCCCce
Q psy3060 108 LRFVGRSGREAE 119 (268)
Q Consensus 108 LRFVGRSGRGKs 119 (268)
+=+||.+|.||+
T Consensus 5 i~vvG~~~vGKT 16 (170)
T cd04115 5 IIVIGDSNVGKT 16 (170)
T ss_pred EEEECCCCCCHH
Confidence 458999999997
No 138
>KOG0214|consensus
Probab=28.02 E-value=41 Score=36.96 Aligned_cols=65 Identities=22% Similarity=0.202 Sum_probs=44.4
Q ss_pred hhhhhhHHHHHhhhhhcccccccCccccccCcccccc--cccccceeeeeEeeeccCCccccCCCCC
Q psy3060 152 QITASISELLRMYEKTLRLGHLILLVPIVPNHLSKID--IFTGGSLCGLVLLTHFSSGARWDSASAP 216 (268)
Q Consensus 152 ~~s~~lsel~r~~~~~mr~~~psnP~Piv~~~ls~~d--~f~~~~~c~lv~~~~~~~~~~~~~~~~~ 216 (268)
-|..-||.|.|...+-.|-|-.-+||-.+|+|.--.= ==.-|.+||||-=--.-+-..|.|.++|
T Consensus 444 t~~sTLsHlRR~n~Pigr~GKlAkpRqlHnthwGmvCPaeTPEGqacGLVKNLSLmayIsvGS~~sP 510 (1141)
T KOG0214|consen 444 NPLSTLSHLRRTNSPIGRTGKLAKPRQLHNSHWGMVCPAETPEGQACGLVKNLSLMAYISVGSLESP 510 (1141)
T ss_pred cHHHHHHHHhhcCCccccccccCCccccCcccceeeccccCCCcceeeccccceEEEEEecCCCccH
Confidence 4677789999999999999988899999999964321 1123899999832211222245565554
No 139
>cd03250 ABCC_MRP_domain1 Domain 1 of the ABC subfamily C. This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.
Probab=28.01 E-value=34 Score=27.70 Aligned_cols=19 Identities=16% Similarity=0.235 Sum_probs=14.0
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+=.+|.||.|||=-+.+..
T Consensus 34 ~~i~G~nG~GKSTLl~~i~ 52 (204)
T cd03250 34 VAIVGPVGSGKSSLLSALL 52 (204)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 3458999999997666543
No 140
>cd01894 EngA1 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.
Probab=27.91 E-value=21 Score=26.01 Aligned_cols=10 Identities=30% Similarity=0.451 Sum_probs=9.1
Q ss_pred eeeccCCCce
Q psy3060 110 FVGRSGREAE 119 (268)
Q Consensus 110 FVGRSGRGKs 119 (268)
++|.+|.|||
T Consensus 2 l~G~~~~GKs 11 (157)
T cd01894 2 IVGRPNVGKS 11 (157)
T ss_pred ccCCCCCCHH
Confidence 6899999997
No 141
>cd03260 ABC_PstB_phosphate_transporter Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein is a phosphate-binding protein located in the periplasmic space. P stA and PstC are hydrophobic and they form the transmembrane portion of the Pst system. PstB is the catalytic subunit, which couples the energy of ATP hydrolysis to the import of phosphate across cellular membranes through the Pst system, often referred as ABC-protein. PstB belongs to one of the largest superfamilies of proteins characterized by a highly conserved adenosine triphosphate (ATP) binding cassette (ABC), which is also a nucleotide binding domain (NBD).
Probab=27.70 E-value=24 Score=29.02 Aligned_cols=21 Identities=14% Similarity=0.069 Sum_probs=15.2
Q ss_pred eeeeeccCCCceeeceEeeee
Q psy3060 108 LRFVGRSGREAEASPKDWVGT 128 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v~t 128 (268)
+-.+|.||.|||=-+.+..+-
T Consensus 29 ~~i~G~nGsGKSTLl~~i~G~ 49 (227)
T cd03260 29 TALIGPSGCGKSTLLRLLNRL 49 (227)
T ss_pred EEEECCCCCCHHHHHHHHHhh
Confidence 346899999999766655443
No 142
>PRK10261 glutathione transporter ATP-binding protein; Provisional
Probab=27.70 E-value=43 Score=32.79 Aligned_cols=18 Identities=22% Similarity=0.350 Sum_probs=13.5
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
=.||.||.|||=.|.+..
T Consensus 46 ~lvG~nGsGKSTLl~~l~ 63 (623)
T PRK10261 46 AIVGESGSGKSVTALALM 63 (623)
T ss_pred EEECCCCChHHHHHHHHH
Confidence 358999999996665543
No 143
>PRK10744 pstB phosphate transporter ATP-binding protein; Provisional
Probab=27.67 E-value=23 Score=30.03 Aligned_cols=18 Identities=22% Similarity=0.392 Sum_probs=13.2
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
-.+|.||.|||=-+.+..
T Consensus 43 ~i~G~nGsGKSTLl~~l~ 60 (260)
T PRK10744 43 AFIGPSGCGKSTLLRTFN 60 (260)
T ss_pred EEECCCCCCHHHHHHHHh
Confidence 368999999996555443
No 144
>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein. This model represents LolD, a member of the ABC transporter family (pfam00005). LolD is involved in localization of lipoproteins in some bacteria. It works with a transmembrane protein LolC, which in some species is a paralogous pair LolC and LolE. Depending on whether the residue immediately following the new, modified N-terminal Cys residue, the nascent lipoprotein may be carried further by LolA and LolB to the outer membrane, or remain at the inner membrane. The top scoring proteins excluded by this model include homologs from the archaeal genus Methanosarcina.
Probab=27.66 E-value=24 Score=28.79 Aligned_cols=17 Identities=24% Similarity=0.196 Sum_probs=12.9
Q ss_pred eeeeccCCCceeeceEe
Q psy3060 109 RFVGRSGREAEASPKDW 125 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~ 125 (268)
=.+|.||.|||=-|.+.
T Consensus 35 ~i~G~nGsGKSTLl~~i 51 (221)
T TIGR02211 35 AIVGSSGSGKSTLLHLL 51 (221)
T ss_pred EEECCCCCCHHHHHHHH
Confidence 36899999999655544
No 145
>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=27.48 E-value=24 Score=28.59 Aligned_cols=18 Identities=17% Similarity=0.198 Sum_probs=13.3
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
=.+|.||.|||=-|.+..
T Consensus 30 ~l~G~nGsGKSTLl~~l~ 47 (213)
T cd03301 30 VLLGPSGCGKTTTLRMIA 47 (213)
T ss_pred EEECCCCCCHHHHHHHHh
Confidence 468999999986555443
No 146
>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.
Probab=27.44 E-value=24 Score=28.30 Aligned_cols=18 Identities=22% Similarity=0.368 Sum_probs=13.7
Q ss_pred eeeccCCCceeeceEeee
Q psy3060 110 FVGRSGREAEASPKDWVG 127 (268)
Q Consensus 110 FVGRSGRGKsFtlti~v~ 127 (268)
.+|.||.|||=-+.+..+
T Consensus 30 l~G~nGsGKStLl~~i~G 47 (180)
T cd03214 30 ILGPNGAGKSTLLKTLAG 47 (180)
T ss_pred EECCCCCCHHHHHHHHhC
Confidence 589999999966655543
No 147
>PRK00300 gmk guanylate kinase; Provisional
Probab=27.44 E-value=25 Score=28.26 Aligned_cols=12 Identities=25% Similarity=0.410 Sum_probs=10.5
Q ss_pred eeeeeccCCCce
Q psy3060 108 LRFVGRSGREAE 119 (268)
Q Consensus 108 LRFVGRSGRGKs 119 (268)
+=++|-||.|||
T Consensus 8 i~i~G~sGsGKs 19 (205)
T PRK00300 8 IVLSGPSGAGKS 19 (205)
T ss_pred EEEECCCCCCHH
Confidence 457999999999
No 148
>cd04177 RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the Rap subfamily of the Ras family that is found in fungi. In budding yeasts, RSR1 is involved in selecting a site for bud growth on the cell cortex, which directs the establishment of cell polarization. The Rho family GTPase cdc42 and its GEF, cdc24, then establish an axis of polarized growth by organizing the actin cytoskeleton and secretory apparatus at the bud site. It is believed that cdc42 interacts directly with RSR1 in vivo. In filamentous fungi, polar growth occurs at the tips of hypha and at novel growth sites along the extending hypha. In Ashbya gossypii, RSR1 is a key regulator of hyphal growth, localizing at the tip region and regulating in apical polarization of the actin cytoskeleton. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key featu
Probab=27.43 E-value=24 Score=27.05 Aligned_cols=14 Identities=21% Similarity=0.311 Sum_probs=11.1
Q ss_pred eeeeeccCCCceee
Q psy3060 108 LRFVGRSGREAEAS 121 (268)
Q Consensus 108 LRFVGRSGRGKsFt 121 (268)
+=++|.+|.|||=-
T Consensus 4 i~liG~~~~GKTsl 17 (168)
T cd04177 4 IVVLGAGGVGKSAL 17 (168)
T ss_pred EEEECCCCCCHHHH
Confidence 34799999999843
No 149
>TIGR02857 CydD thiol reductant ABC exporter, CydD subunit. Unfortunately, the gene symbol nomenclature adopted based on this operon in B. subtilis assigns cydC to the third gene in the operon where this gene is actually homologous to the E. coli cydD gene. We have chosen to name all homologs in this family in accordance with the precedence of publication of the E. coli name, CydD
Probab=27.36 E-value=24 Score=32.95 Aligned_cols=20 Identities=25% Similarity=0.338 Sum_probs=14.5
Q ss_pred eeeeeccCCCceeeceEeee
Q psy3060 108 LRFVGRSGREAEASPKDWVG 127 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v~ 127 (268)
.-+||.||.|||=-+.+-.+
T Consensus 351 ~~ivG~sGsGKSTL~~ll~g 370 (529)
T TIGR02857 351 VALVGPSGAGKSTLLNLLLG 370 (529)
T ss_pred EEEECCCCCCHHHHHHHHhc
Confidence 45799999999965554443
No 150
>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=27.35 E-value=24 Score=28.60 Aligned_cols=19 Identities=16% Similarity=0.295 Sum_probs=14.0
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+-.+|.||.|||=-|.+..
T Consensus 29 ~~i~G~nGsGKSTLl~~l~ 47 (205)
T cd03226 29 IALTGKNGAGKTTLAKILA 47 (205)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 3468999999996665543
No 151
>PRK00454 engB GTP-binding protein YsxC; Reviewed
Probab=27.33 E-value=25 Score=27.33 Aligned_cols=15 Identities=27% Similarity=0.488 Sum_probs=12.0
Q ss_pred ceeeeeccCCCceee
Q psy3060 107 DLRFVGRSGREAEAS 121 (268)
Q Consensus 107 DLRFVGRSGRGKsFt 121 (268)
++=++|.+|.|||=-
T Consensus 26 ~v~ivG~~~~GKSsl 40 (196)
T PRK00454 26 EIAFAGRSNVGKSSL 40 (196)
T ss_pred EEEEEcCCCCCHHHH
Confidence 366899999999743
No 152
>PRK13638 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=27.31 E-value=24 Score=30.23 Aligned_cols=19 Identities=16% Similarity=0.128 Sum_probs=14.1
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+=++|.||.|||=-|.+..
T Consensus 30 ~~i~G~nGsGKSTLl~~l~ 48 (271)
T PRK13638 30 TGLVGANGCGKSTLFMNLS 48 (271)
T ss_pred EEEECCCCCCHHHHHHHHc
Confidence 4478999999996555443
No 153
>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport. Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....
Probab=27.23 E-value=22 Score=25.56 Aligned_cols=18 Identities=11% Similarity=0.202 Sum_probs=14.5
Q ss_pred eeeccCCCceeeceEeee
Q psy3060 110 FVGRSGREAEASPKDWVG 127 (268)
Q Consensus 110 FVGRSGRGKsFtlti~v~ 127 (268)
+.|.+|.||++.+.....
T Consensus 3 l~G~~G~GKT~l~~~la~ 20 (132)
T PF00004_consen 3 LHGPPGTGKTTLARALAQ 20 (132)
T ss_dssp EESSTTSSHHHHHHHHHH
T ss_pred EECcCCCCeeHHHHHHHh
Confidence 689999999998776543
No 154
>TIGR01978 sufC FeS assembly ATPase SufC. SufC is part of the SUF system, shown in E. coli to consist of six proteins and believed to act in Fe-S cluster formation during oxidative stress. SufC forms a complex with SufB and SufD. SufC belongs to the ATP-binding cassette transporter family (pfam00005) but is no longer thought to be part of a transporter. The complex is reported as cytosolic (PubMed:12554644) or associated with the membrane (PubMed:11943156). The SUF system also includes a cysteine desulfurase (SufS, enhanced by SufE) and a probable iron-sulfur cluster assembly scaffold protein, SufA.
Probab=27.19 E-value=25 Score=28.99 Aligned_cols=20 Identities=20% Similarity=0.320 Sum_probs=14.5
Q ss_pred eeeeeccCCCceeeceEeee
Q psy3060 108 LRFVGRSGREAEASPKDWVG 127 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v~ 127 (268)
+=.+|.||.|||=-|.+..+
T Consensus 29 ~~i~G~nGsGKSTLl~~l~G 48 (243)
T TIGR01978 29 HAIMGPNGSGKSTLSKTIAG 48 (243)
T ss_pred EEEECCCCCCHHHHHHHHhC
Confidence 34689999999965555444
No 155
>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional
Probab=27.09 E-value=25 Score=29.57 Aligned_cols=19 Identities=26% Similarity=0.146 Sum_probs=13.7
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+-.+|+||.|||=-|.+..
T Consensus 32 ~~i~G~nGsGKSTLl~~l~ 50 (241)
T PRK14250 32 YTIVGPSGAGKSTLIKLIN 50 (241)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 3468999999996555443
No 156
>cd08365 APC10-like1 APC10-like DOC1 domains of E3 ubiquitin ligases that mediate substrate ubiquitination. This model represens the APC10-like DOC1 domain of multi-domain proteins present in E3 ubiquitin ligases. E3 ubiquitin ligases mediate substrate ubiquitination (or ubiquitylation), a component of the ubiquitin-26S proteasome pathway for selective proteolytic degradation. APC10/DOC1 domains such as those present in HECT (Homologous to the E6-AP Carboxyl Terminus) and Cullin-RING (Really Interesting New Gene) E3 ubiquitin ligase proteins, HECTD3, and CUL7, respectively, are also included here. CUL7 is a member of the Cullin-RING ligase family and functions as a molecular scaffold assembling a SCF-ROC1-like E3 ubiquitin ligase complex consisting of Skp1, CUL7, Fbx29 F-box protein, and ROC1 (RING-box protein 1) and promotes ubiquitination. CUL7 is a multi-domain protein with a C-terminal cullin domain that binds ROC1 and a centrally positioned APC10/DOC1 domain. HECTD3 contains a C-te
Probab=27.08 E-value=1.7e+02 Score=24.62 Aligned_cols=21 Identities=24% Similarity=0.373 Sum_probs=17.3
Q ss_pred eEEEEeecCCCccccccccce
Q psy3060 75 TIVTIRAGNDENYCGELRNCT 95 (268)
Q Consensus 75 T~Vtv~AGNDEN~~AELRN~t 95 (268)
+.|.|+||++.+--.|++.-.
T Consensus 67 ~~I~V~~G~~~~dL~e~~~v~ 87 (131)
T cd08365 67 QRVVVAGGRSASNLQELRDVN 87 (131)
T ss_pred cEEEEEecCCHHHheeEEEEE
Confidence 689999999999888876543
No 157
>PTZ00243 ABC transporter; Provisional
Probab=27.06 E-value=24 Score=38.79 Aligned_cols=13 Identities=31% Similarity=0.616 Sum_probs=10.9
Q ss_pred eeeeeccCCCcee
Q psy3060 108 LRFVGRSGREAEA 120 (268)
Q Consensus 108 LRFVGRSGRGKsF 120 (268)
+=+|||||.|||=
T Consensus 1339 VaIVGrTGSGKST 1351 (1560)
T PTZ00243 1339 VGIVGRTGSGKST 1351 (1560)
T ss_pred EEEECCCCCCHHH
Confidence 4579999999984
No 158
>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=27.01 E-value=25 Score=28.98 Aligned_cols=13 Identities=23% Similarity=0.335 Sum_probs=10.7
Q ss_pred eeeeeccCCCcee
Q psy3060 108 LRFVGRSGREAEA 120 (268)
Q Consensus 108 LRFVGRSGRGKsF 120 (268)
+-++|.||.|||-
T Consensus 9 i~I~G~sGsGKST 21 (207)
T TIGR00235 9 IGIGGGSGSGKTT 21 (207)
T ss_pred EEEECCCCCCHHH
Confidence 3478999999994
No 159
>CHL00131 ycf16 sulfate ABC transporter protein; Validated
Probab=27.01 E-value=25 Score=29.37 Aligned_cols=18 Identities=22% Similarity=0.348 Sum_probs=13.6
Q ss_pred eeeccCCCceeeceEeee
Q psy3060 110 FVGRSGREAEASPKDWVG 127 (268)
Q Consensus 110 FVGRSGRGKsFtlti~v~ 127 (268)
++|.||.|||=-+.+..+
T Consensus 38 i~G~nGsGKSTLl~~i~G 55 (252)
T CHL00131 38 IMGPNGSGKSTLSKVIAG 55 (252)
T ss_pred EECCCCCCHHHHHHHHcC
Confidence 689999999966655443
No 160
>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis. The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.
Probab=27.00 E-value=25 Score=28.08 Aligned_cols=19 Identities=21% Similarity=0.316 Sum_probs=13.8
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+-++|++|.|||=-|.+..
T Consensus 31 ~~i~G~nGsGKStLl~~l~ 49 (178)
T cd03247 31 IALLGRSGSGKSTLLQLLT 49 (178)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 3478999999996555443
No 161
>PRK14261 phosphate ABC transporter ATP-binding protein; Provisional
Probab=26.90 E-value=25 Score=29.58 Aligned_cols=18 Identities=17% Similarity=0.241 Sum_probs=13.8
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
-.+|+||.|||=-+.+..
T Consensus 36 ~i~G~nGsGKSTLl~~l~ 53 (253)
T PRK14261 36 ALIGPSGCGKSTLLRCFN 53 (253)
T ss_pred EEECCCCCCHHHHHHHHh
Confidence 468999999996665554
No 162
>PRK14251 phosphate ABC transporter ATP-binding protein; Provisional
Probab=26.88 E-value=25 Score=29.43 Aligned_cols=18 Identities=17% Similarity=0.165 Sum_probs=13.4
Q ss_pred eeeeeccCCCceeeceEe
Q psy3060 108 LRFVGRSGREAEASPKDW 125 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~ 125 (268)
.-.+|+||.|||=-+.+.
T Consensus 33 ~~i~G~nGsGKSTLl~~l 50 (251)
T PRK14251 33 TALIGPSGCGKSTFLRCL 50 (251)
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 347899999999655444
No 163
>PRK10359 lipopolysaccharide core biosynthesis protein; Provisional
Probab=26.86 E-value=1.5e+02 Score=26.53 Aligned_cols=74 Identities=4% Similarity=-0.124 Sum_probs=44.9
Q ss_pred eecceeeeeccCCCceeeceEeeeeeeeEEeeecCcccchhhhhhhhhhhhhhhHHHHHhhhhhcccccccCccccccCc
Q psy3060 104 KFNDLRFVGRSGREAEASPKDWVGTLIWLIGIKNKHQQYEIEISFLINQITASISELLRMYEKTLRLGHLILLVPIVPNH 183 (268)
Q Consensus 104 rFNDLRFVGRSGRGKsFtlti~v~t~~~~i~v~~~hrq~~~~~~~~~~~~s~~lsel~r~~~~~mr~~~psnP~Piv~~~ 183 (268)
||.=+|-.|..|+|+.|-+.++ --..+||+.+...... +. ....|.. -+++++..+..-|+.+|.-++|..+..
T Consensus 32 ~y~~~~~l~~~~f~~v~l~~~~--~~~~iiKvf~~~~~~~--~~-~~~~f~~-g~~~e~Ea~~l~rL~~~GI~~~~d~~~ 105 (232)
T PRK10359 32 NIKTIKVFRNIDDTKVSLIDTD--YGKYILKVFAPKVKRT--ER-FLKSFVK-GDYYENLIVQTDRVRSEGLASLNDFYL 105 (232)
T ss_pred ceEEEEEecCCCceEEEEEecC--CCcEEEEEechhcCch--HH-HHHhhhh-hHHHHHHHHHHHHHHHCCCCcceEeee
Confidence 6777888999999999964443 3368888876443211 11 1111111 345666666667777777777665533
No 164
>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional
Probab=26.83 E-value=25 Score=29.31 Aligned_cols=18 Identities=6% Similarity=0.073 Sum_probs=13.5
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
-.+|.||.|||=-|.+..
T Consensus 17 ~l~G~NGsGKSTLlk~i~ 34 (213)
T PRK15177 17 GILAAPGSGKTTLTRLLC 34 (213)
T ss_pred EEECCCCCCHHHHHHHHh
Confidence 468999999986655543
No 165
>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-binding protein (cysP). 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=26.82 E-value=25 Score=29.30 Aligned_cols=19 Identities=16% Similarity=0.198 Sum_probs=14.1
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+-.+|.||.|||=-|.+..
T Consensus 31 ~~i~G~nGsGKSTLl~~l~ 49 (239)
T cd03296 31 VALLGPSGSGKTTLLRLIA 49 (239)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 4478999999996655543
No 166
>cd01887 IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases, IF2/IF5B undergoes conformational changes between its GTP- and GDP-bound states. Eukaryotic IF2/eIF5Bs possess three characteristic segments, including a divergent N-terminal region followed by conserved central and C-terminal segments. This core region is conserved among all known eukaryotic and archaeal IF2/eIF5Bs and eubacterial IF2s.
Probab=26.77 E-value=27 Score=26.07 Aligned_cols=11 Identities=9% Similarity=0.217 Sum_probs=9.7
Q ss_pred eeeeccCCCce
Q psy3060 109 RFVGRSGREAE 119 (268)
Q Consensus 109 RFVGRSGRGKs 119 (268)
=++|++|.|||
T Consensus 4 ~iiG~~~~GKt 14 (168)
T cd01887 4 TVMGHVDHGKT 14 (168)
T ss_pred EEEecCCCCHH
Confidence 47999999997
No 167
>PRK13538 cytochrome c biogenesis protein CcmA; Provisional
Probab=26.73 E-value=25 Score=28.67 Aligned_cols=18 Identities=11% Similarity=0.130 Sum_probs=13.7
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
-.+|++|.|||=-+.+..
T Consensus 31 ~l~G~nGsGKSTLl~~l~ 48 (204)
T PRK13538 31 QIEGPNGAGKTSLLRILA 48 (204)
T ss_pred EEECCCCCCHHHHHHHHh
Confidence 468999999996665543
No 168
>PRK14269 phosphate ABC transporter ATP-binding protein; Provisional
Probab=26.71 E-value=25 Score=29.50 Aligned_cols=17 Identities=18% Similarity=0.290 Sum_probs=12.5
Q ss_pred eeeeccCCCceeeceEe
Q psy3060 109 RFVGRSGREAEASPKDW 125 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~ 125 (268)
=++|+||.|||=-+.+.
T Consensus 32 ~i~G~nGsGKSTLl~~l 48 (246)
T PRK14269 32 ALIGASGCGKSTFLRCF 48 (246)
T ss_pred EEECCCCCCHHHHHHHH
Confidence 46899999999544443
No 169
>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein. Phosphonates are a class of phosphorus-containing organic compound with a stable direct C-P bond rather than a C-O-P linkage. A number of bacterial species have operons, typically about 14 genes in size, with genes for ATP-dependent transport of phosphonates, degradation, and regulation of the expression of the system. Members of this protein family are the ATP-binding cassette component of tripartite ABC transporters of phosphonates.
Probab=26.70 E-value=25 Score=29.06 Aligned_cols=17 Identities=18% Similarity=0.204 Sum_probs=12.9
Q ss_pred eeeeccCCCceeeceEe
Q psy3060 109 RFVGRSGREAEASPKDW 125 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~ 125 (268)
=.+|.||.|||=-|.+.
T Consensus 32 ~l~G~nGsGKSTLl~~l 48 (243)
T TIGR02315 32 AIIGPSGAGKSTLLRCI 48 (243)
T ss_pred EEECCCCCCHHHHHHHH
Confidence 46899999999655544
No 170
>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]
Probab=26.66 E-value=24 Score=31.78 Aligned_cols=16 Identities=25% Similarity=0.210 Sum_probs=12.4
Q ss_pred eeeccCCCceeeceEe
Q psy3060 110 FVGRSGREAEASPKDW 125 (268)
Q Consensus 110 FVGRSGRGKsFtlti~ 125 (268)
.+|.||+|||==|.|.
T Consensus 36 I~GpSGSGKSTLLnii 51 (226)
T COG1136 36 IVGPSGSGKSTLLNLL 51 (226)
T ss_pred EECCCCCCHHHHHHHH
Confidence 4799999999666553
No 171
>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5). All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity
Probab=26.65 E-value=24 Score=26.56 Aligned_cols=15 Identities=20% Similarity=0.310 Sum_probs=12.2
Q ss_pred eeeccCCCceeeceE
Q psy3060 110 FVGRSGREAEASPKD 124 (268)
Q Consensus 110 FVGRSGRGKsFtlti 124 (268)
+.|.+|.|||.-...
T Consensus 3 i~G~~G~GKS~l~~~ 17 (107)
T PF00910_consen 3 IYGPPGIGKSTLAKE 17 (107)
T ss_pred EECCCCCCHHHHHHH
Confidence 679999999986554
No 172
>PRK13657 cyclic beta-1,2-glucan ABC transporter; Provisional
Probab=26.59 E-value=25 Score=33.45 Aligned_cols=21 Identities=14% Similarity=0.118 Sum_probs=14.9
Q ss_pred eeeeeccCCCceeeceEeeee
Q psy3060 108 LRFVGRSGREAEASPKDWVGT 128 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v~t 128 (268)
.=.||+||.|||==+.+-.+-
T Consensus 364 v~IvG~sGsGKSTLl~lL~gl 384 (588)
T PRK13657 364 VAIVGPTGAGKSTLINLLQRV 384 (588)
T ss_pred EEEECCCCCCHHHHHHHHhcC
Confidence 457999999999555544433
No 173
>cd03289 ABCC_CFTR2 The CFTR subfamily domain 2. The cystic fibrosis transmembrane regulator (CFTR), the product of the gene mutated in patients with cystic fibrosis, has adapted the ABC transporter structural motif to form a tightly regulated anion channel at the apical surface of many epithelia. Use of the term assembly of a functional ion channel implies the coming together of subunits or at least smaller not-yet functional components of the active whole. In fact, on the basis of current knowledge only the CFTR polypeptide itself is required to form an ATP- and protein kinase A-dependent low-conductance chloride channel of the type present in the apical membrane of many epithelial cells. CFTR displays the typical organization (IM-ABC)2 and carries a characteristic hydrophilic R-domain that separates IM1-ABC1 from IM2-ABC2.
Probab=26.49 E-value=25 Score=31.12 Aligned_cols=15 Identities=20% Similarity=0.423 Sum_probs=11.9
Q ss_pred eeeeeccCCCceeec
Q psy3060 108 LRFVGRSGREAEASP 122 (268)
Q Consensus 108 LRFVGRSGRGKsFtl 122 (268)
+-++|+||.|||=-|
T Consensus 33 ~~IvG~nGsGKSTLl 47 (275)
T cd03289 33 VGLLGRTGSGKSTLL 47 (275)
T ss_pred EEEECCCCCCHHHHH
Confidence 457999999998544
No 174
>cd00880 Era_like Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs), to the exclusion of other GTPases. TrmE is ubiquitous in bacteria and is a widespread mitochondrial protein in eukaryotes, but is absent from archaea. The yeast member of TrmE family, MSS1, is involved in mitochondrial translation; bacterial members are often present in translation-related operons. FeoB represents an unusual adaptation of GTPases for high-affinity iron (II) transport. YihA (EngB) family of GTPases is typified by the E. coli YihA, which is an essential protein involved in cell division control. Era is characterized by a distinct derivative of the KH domain (the pseudo-KH domain) which is located C-terminal to the GTPase domain. EngA and its orthologs are composed of two GTPase domains and, since the se
Probab=26.47 E-value=23 Score=24.80 Aligned_cols=14 Identities=14% Similarity=0.268 Sum_probs=10.8
Q ss_pred eeeccCCCceeece
Q psy3060 110 FVGRSGREAEASPK 123 (268)
Q Consensus 110 FVGRSGRGKsFtlt 123 (268)
++|.+|.|||--+.
T Consensus 1 i~G~~gsGKstl~~ 14 (163)
T cd00880 1 LFGRTNAGKSSLLN 14 (163)
T ss_pred CcCCCCCCHHHHHH
Confidence 47999999975544
No 175
>PRK12289 GTPase RsgA; Reviewed
Probab=26.47 E-value=26 Score=32.78 Aligned_cols=38 Identities=16% Similarity=0.083 Sum_probs=24.8
Q ss_pred EEEEeecCCCccccccccceeeeccceeeecceeeeeccCCCceeec
Q psy3060 76 IVTIRAGNDENYCGELRNCTAVMKNQVAKFNDLRFVGRSGREAEASP 122 (268)
Q Consensus 76 ~Vtv~AGNDEN~~AELRN~tAvMKNqVArFNDLRFVGRSGRGKsFtl 122 (268)
.+.++|-+.++. .||++... +.+ .=|+|.||.|||=-|
T Consensus 152 v~~iSA~tg~GI-~eL~~~L~---~ki-----~v~iG~SgVGKSSLI 189 (352)
T PRK12289 152 PLFISVETGIGL-EALLEQLR---NKI-----TVVAGPSGVGKSSLI 189 (352)
T ss_pred EEEEEcCCCCCH-HHHhhhhc---cce-----EEEEeCCCCCHHHHH
Confidence 456677777663 56665443 222 569999999998433
No 176
>PRK15093 antimicrobial peptide ABC transporter ATP-binding protein; Provisional
Probab=26.43 E-value=25 Score=31.59 Aligned_cols=19 Identities=26% Similarity=0.268 Sum_probs=14.2
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+=+||.||.|||=-+.+..
T Consensus 36 ~~ivG~sGsGKSTLl~~i~ 54 (330)
T PRK15093 36 RGLVGESGSGKSLIAKAIC 54 (330)
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 4579999999996555443
No 177
>smart00382 AAA ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Probab=26.42 E-value=26 Score=23.85 Aligned_cols=17 Identities=18% Similarity=0.274 Sum_probs=13.6
Q ss_pred eeeeccCCCceeeceEe
Q psy3060 109 RFVGRSGREAEASPKDW 125 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~ 125 (268)
=++|-+|.||+-.+...
T Consensus 6 ~l~G~~G~GKTtl~~~l 22 (148)
T smart00382 6 LIVGPPGSGKTTLARAL 22 (148)
T ss_pred EEECCCCCcHHHHHHHH
Confidence 47899999999877544
No 178
>cd01854 YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. All YjeQ family proteins display a unique domain architecture, which includes an N-terminal OB-fold RNA-binding domain, the central permuted GTPase domain, and a zinc knuckle-like C-terminal cysteine domain. This domain architecture suggests a role for YjeQ as a regulator of translation.
Probab=26.42 E-value=25 Score=31.12 Aligned_cols=40 Identities=23% Similarity=0.288 Sum_probs=24.1
Q ss_pred EEEeecCCCccccccccceeeeccceeeecceeeeeccCCCceeeceEe
Q psy3060 77 VTIRAGNDENYCGELRNCTAVMKNQVAKFNDLRFVGRSGREAEASPKDW 125 (268)
Q Consensus 77 Vtv~AGNDEN~~AELRN~tAvMKNqVArFNDLRFVGRSGRGKsFtlti~ 125 (268)
+.++|-+.++. .+|+...+ + .-.=|+|.||.|||=.+...
T Consensus 142 ~~vSA~~g~gi-~~L~~~L~---~-----k~~~~~G~sg~GKSTlin~l 181 (287)
T cd01854 142 LAVSAKTGEGL-DELREYLK---G-----KTSVLVGQSGVGKSTLINAL 181 (287)
T ss_pred EEEECCCCccH-HHHHhhhc---c-----ceEEEECCCCCCHHHHHHHH
Confidence 45566655542 44544322 2 23569999999998655543
No 179
>cd04163 Era Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.
Probab=26.32 E-value=27 Score=25.11 Aligned_cols=12 Identities=25% Similarity=0.410 Sum_probs=10.3
Q ss_pred eeeeeccCCCce
Q psy3060 108 LRFVGRSGREAE 119 (268)
Q Consensus 108 LRFVGRSGRGKs 119 (268)
+-++|.+|.|||
T Consensus 6 i~~~G~~g~GKt 17 (168)
T cd04163 6 VAIVGRPNVGKS 17 (168)
T ss_pred EEEECCCCCCHH
Confidence 458999999996
No 180
>PRK11231 fecE iron-dicitrate transporter ATP-binding subunit; Provisional
Probab=26.26 E-value=26 Score=29.58 Aligned_cols=19 Identities=16% Similarity=0.232 Sum_probs=14.0
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+=++|+||.|||=-|.+..
T Consensus 31 ~~l~G~nGsGKSTLl~~l~ 49 (255)
T PRK11231 31 TALIGPNGCGKSTLLKCFA 49 (255)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 3478999999996555443
No 181
>COG0218 Predicted GTPase [General function prediction only]
Probab=26.24 E-value=26 Score=31.45 Aligned_cols=13 Identities=31% Similarity=0.547 Sum_probs=11.3
Q ss_pred eeeeeccCCCcee
Q psy3060 108 LRFVGRSGREAEA 120 (268)
Q Consensus 108 LRFVGRSGRGKsF 120 (268)
.=|+|||-.|||=
T Consensus 27 IaF~GRSNVGKSS 39 (200)
T COG0218 27 IAFAGRSNVGKSS 39 (200)
T ss_pred EEEEccCcccHHH
Confidence 4699999999984
No 182
>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under stressful conditions. The SUF system is made of six proteins: SufC is an atypical cytoplasmic ABC-ATPase, which forms a complex with SufB and SufD; SufA plays the role of a scaffold protein for assembly of iron-sulfur clusters and delivery to target proteins; SufS is a cysteine desulfurase which mobilizes the sulfur atom from cysteine and provides it to the cluster; SufE has no associated function yet.
Probab=26.19 E-value=26 Score=28.66 Aligned_cols=19 Identities=21% Similarity=0.412 Sum_probs=13.9
Q ss_pred eeeeccCCCceeeceEeee
Q psy3060 109 RFVGRSGREAEASPKDWVG 127 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v~ 127 (268)
=.+|.||.|||=-+.+..+
T Consensus 30 ~i~G~nGsGKStLl~~l~G 48 (200)
T cd03217 30 ALMGPNGSGKSTLAKTIMG 48 (200)
T ss_pred EEECCCCCCHHHHHHHHhC
Confidence 4689999999965555444
No 183
>PRK15112 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional
Probab=26.13 E-value=26 Score=30.05 Aligned_cols=17 Identities=24% Similarity=0.389 Sum_probs=12.7
Q ss_pred eeeeeccCCCceeeceE
Q psy3060 108 LRFVGRSGREAEASPKD 124 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti 124 (268)
+-++|+||.|||=-|.+
T Consensus 42 ~~i~G~NGsGKSTLl~~ 58 (267)
T PRK15112 42 LAIIGENGSGKSTLAKM 58 (267)
T ss_pred EEEEcCCCCCHHHHHHH
Confidence 45789999999954443
No 184
>cd03249 ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the yeast MDL1 (multidrug resistance-like protein 1) and MDL2 (multidrug resistance-like protein 2) transporters are also included in this CD. MDL1 is an ATP-dependent permease that acts as a high-copy suppressor of ATM1 and is thought to have a role in resistance to oxidative stress. Interestingly, subfamily B is more closely related to the carboxyl-terminal component of subfamily C than the two halves of ABCC molecules are with one another.
Probab=26.12 E-value=27 Score=28.90 Aligned_cols=18 Identities=22% Similarity=0.152 Sum_probs=13.5
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
=.+|.||.|||=-+.+..
T Consensus 33 ~l~G~nGsGKSTLl~~i~ 50 (238)
T cd03249 33 ALVGSSGCGKSTVVSLLE 50 (238)
T ss_pred EEEeCCCCCHHHHHHHHh
Confidence 358999999996665543
No 185
>PRK03846 adenylylsulfate kinase; Provisional
Probab=26.08 E-value=26 Score=28.70 Aligned_cols=14 Identities=36% Similarity=0.456 Sum_probs=11.4
Q ss_pred ceeeeeccCCCcee
Q psy3060 107 DLRFVGRSGREAEA 120 (268)
Q Consensus 107 DLRFVGRSGRGKsF 120 (268)
=+=++|.||.|||=
T Consensus 26 ~i~i~G~~GsGKST 39 (198)
T PRK03846 26 VLWFTGLSGSGKST 39 (198)
T ss_pred EEEEECCCCCCHHH
Confidence 35689999999973
No 186
>PRK10575 iron-hydroxamate transporter ATP-binding subunit; Provisional
Probab=26.05 E-value=26 Score=29.90 Aligned_cols=18 Identities=17% Similarity=0.187 Sum_probs=13.3
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
-++|.||.|||=-+.+..
T Consensus 41 ~i~G~nGsGKSTLl~~l~ 58 (265)
T PRK10575 41 GLIGHNGSGKSTLLKMLG 58 (265)
T ss_pred EEECCCCCCHHHHHHHHc
Confidence 468999999986555443
No 187
>PRK14239 phosphate transporter ATP-binding protein; Provisional
Probab=26.01 E-value=26 Score=29.20 Aligned_cols=18 Identities=17% Similarity=0.263 Sum_probs=13.2
Q ss_pred eeeeeccCCCceeeceEe
Q psy3060 108 LRFVGRSGREAEASPKDW 125 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~ 125 (268)
+-.+|.||.|||=-|.+.
T Consensus 34 ~~i~G~nGsGKSTLl~~l 51 (252)
T PRK14239 34 TALIGPSGSGKSTLLRSI 51 (252)
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 446899999998555444
No 188
>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system. Members of this protein family are the ATP-binding subunit of an ABC transporter system that is associated with PQQ biosynthesis and PQQ-dependent alcohol dehydrogenases. While this family shows homology to several efflux ABC transporter subunits, the presence of a periplasmic substrate-binding protein and association with systems for catabolism of alcohols suggests a role in import rather than detoxification.
Probab=25.92 E-value=27 Score=29.08 Aligned_cols=17 Identities=12% Similarity=0.098 Sum_probs=12.6
Q ss_pred eeeeccCCCceeeceEe
Q psy3060 109 RFVGRSGREAEASPKDW 125 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~ 125 (268)
=.+|.||.|||=-+.+.
T Consensus 31 ~i~G~nGsGKSTLl~~l 47 (236)
T TIGR03864 31 ALLGPNGAGKSTLFSLL 47 (236)
T ss_pred EEECCCCCCHHHHHHHH
Confidence 36899999998655443
No 189
>cd01866 Rab2 Rab2 subfamily. Rab2 is localized on cis-Golgi membranes and interacts with Golgi matrix proteins. Rab2 is also implicated in the maturation of vesicular tubular clusters (VTCs), which are microtubule-associated intermediates in transport between the ER and Golgi apparatus. In plants, Rab2 regulates vesicle trafficking between the ER and the Golgi bodies and is important to pollen tube growth. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key featur
Probab=25.92 E-value=27 Score=26.88 Aligned_cols=12 Identities=17% Similarity=0.365 Sum_probs=10.3
Q ss_pred eeeeeccCCCce
Q psy3060 108 LRFVGRSGREAE 119 (268)
Q Consensus 108 LRFVGRSGRGKs 119 (268)
+=+||++|.|||
T Consensus 7 i~vvG~~~vGKS 18 (168)
T cd01866 7 YIIIGDTGVGKS 18 (168)
T ss_pred EEEECCCCCCHH
Confidence 447999999997
No 190
>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter 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=25.91 E-value=27 Score=27.87 Aligned_cols=19 Identities=16% Similarity=0.167 Sum_probs=14.1
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+-.+|.||.|||=-+.+..
T Consensus 29 ~~i~G~nGsGKStLl~~l~ 47 (173)
T cd03230 29 YGLLGPNGAGKTTLIKIIL 47 (173)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 4578999999996555543
No 191
>PRK10908 cell division protein FtsE; Provisional
Probab=25.86 E-value=27 Score=28.70 Aligned_cols=17 Identities=24% Similarity=0.135 Sum_probs=12.7
Q ss_pred eeeeccCCCceeeceEe
Q psy3060 109 RFVGRSGREAEASPKDW 125 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~ 125 (268)
=.+|.||.|||=-+.+.
T Consensus 32 ~i~G~nGsGKSTLl~~l 48 (222)
T PRK10908 32 FLTGHSGAGKSTLLKLI 48 (222)
T ss_pred EEECCCCCCHHHHHHHH
Confidence 36899999998555443
No 192
>TIGR02324 CP_lyasePhnL phosphonate C-P lyase system protein PhnL. Members of this family are the PhnL protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated C-P lysase complex. This protein (PhnL) and the adjacent-encoded PhnK (TIGR02323) resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this C-P lyase complex rather than part of a transporter per se.
Probab=25.85 E-value=27 Score=28.65 Aligned_cols=19 Identities=21% Similarity=0.233 Sum_probs=13.9
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+-.+|.||.|||=-|.+..
T Consensus 37 ~~l~G~nGsGKSTLl~~i~ 55 (224)
T TIGR02324 37 VALSGPSGAGKSTLLKSLY 55 (224)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 3468999999986555543
No 193
>cd03300 ABC_PotA_N PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required for homodimerization with PotA and heterdimerization with PotB. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=25.83 E-value=27 Score=29.08 Aligned_cols=17 Identities=18% Similarity=0.227 Sum_probs=12.2
Q ss_pred eeeeeccCCCceeeceE
Q psy3060 108 LRFVGRSGREAEASPKD 124 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti 124 (268)
.-++|+||.|||=-+.+
T Consensus 29 ~~i~G~nGsGKSTLl~~ 45 (232)
T cd03300 29 FTLLGPSGCGKTTLLRL 45 (232)
T ss_pred EEEECCCCCCHHHHHHH
Confidence 34689999999944433
No 194
>PRK13541 cytochrome c biogenesis protein CcmA; Provisional
Probab=25.76 E-value=27 Score=28.30 Aligned_cols=18 Identities=11% Similarity=0.049 Sum_probs=13.8
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
=.+|.+|.|||=-+.+..
T Consensus 30 ~l~G~nGsGKSTLl~~l~ 47 (195)
T PRK13541 30 YIKGANGCGKSSLLRMIA 47 (195)
T ss_pred EEECCCCCCHHHHHHHHh
Confidence 368999999997665554
No 195
>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=25.61 E-value=27 Score=28.74 Aligned_cols=19 Identities=16% Similarity=0.212 Sum_probs=14.0
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+=.+|.||.|||=-+.+..
T Consensus 30 ~~i~G~nGsGKSTLl~~l~ 48 (241)
T cd03256 30 VALIGPSGAGKSTLLRCLN 48 (241)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 3468999999996655543
No 196
>cd00267 ABC_ATPase 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, 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=25.56 E-value=28 Score=27.09 Aligned_cols=17 Identities=18% Similarity=0.268 Sum_probs=12.8
Q ss_pred eeeeccCCCceeeceEe
Q psy3060 109 RFVGRSGREAEASPKDW 125 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~ 125 (268)
-++|.+|.|||=-+.+.
T Consensus 29 ~i~G~nGsGKStll~~l 45 (157)
T cd00267 29 ALVGPNGSGKSTLLRAI 45 (157)
T ss_pred EEECCCCCCHHHHHHHH
Confidence 47899999999555444
No 197
>PF06709 DUF1196: Protein of unknown function (DUF1196); InterPro: IPR009585 This family consists of several hypothetical bacterial proteins of around 51 residues in length which seem to be specific to Vibrio cholerae. The function of this family is unknown.
Probab=25.55 E-value=18 Score=26.92 Aligned_cols=11 Identities=64% Similarity=0.890 Sum_probs=9.3
Q ss_pred eeeeecccccc
Q psy3060 232 GYHIHKTKLLK 242 (268)
Q Consensus 232 ~~~~~~~~~~~ 242 (268)
.|||||||.|.
T Consensus 36 ~~Hi~k~Kmlh 46 (51)
T PF06709_consen 36 QTHIHKTKMLH 46 (51)
T ss_pred HhHHhHhheee
Confidence 58999999875
No 198
>PRK14260 phosphate ABC transporter ATP-binding protein; Provisional
Probab=25.48 E-value=27 Score=29.62 Aligned_cols=19 Identities=21% Similarity=0.160 Sum_probs=13.8
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+-++|.||.|||=-|.+..
T Consensus 36 ~~l~G~nGsGKSTLlk~l~ 54 (259)
T PRK14260 36 TAIIGPSGCGKSTFIKTLN 54 (259)
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 4578999999995554443
No 199
>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B ....
Probab=25.48 E-value=26 Score=26.02 Aligned_cols=14 Identities=21% Similarity=0.370 Sum_probs=11.3
Q ss_pred eeeccCCCceeece
Q psy3060 110 FVGRSGREAEASPK 123 (268)
Q Consensus 110 FVGRSGRGKsFtlt 123 (268)
++|-+|.|||.-..
T Consensus 4 ~~G~pgsGKSt~a~ 17 (143)
T PF13671_consen 4 LCGPPGSGKSTLAK 17 (143)
T ss_dssp EEESTTSSHHHHHH
T ss_pred EECCCCCCHHHHHH
Confidence 68999999997543
No 200
>PRK10771 thiQ thiamine transporter ATP-binding subunit; Provisional
Probab=25.43 E-value=27 Score=28.93 Aligned_cols=18 Identities=17% Similarity=0.152 Sum_probs=13.3
Q ss_pred eeeeeccCCCceeeceEe
Q psy3060 108 LRFVGRSGREAEASPKDW 125 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~ 125 (268)
+=.+|+||.|||=-|.+.
T Consensus 28 ~~l~G~nGsGKSTLl~~l 45 (232)
T PRK10771 28 VAILGPSGAGKSTLLNLI 45 (232)
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 347899999999555443
No 201
>TIGR03375 type_I_sec_LssB type I secretion system ATPase, LssB family. Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion. This model is related to models TIGR01842 and TIGR01846, and to bacteriocin ABC transporters that cleave their substrates during export.
Probab=25.41 E-value=27 Score=34.04 Aligned_cols=15 Identities=20% Similarity=0.366 Sum_probs=11.9
Q ss_pred eeeeeccCCCceeec
Q psy3060 108 LRFVGRSGREAEASP 122 (268)
Q Consensus 108 LRFVGRSGRGKsFtl 122 (268)
.-.||+||.|||==+
T Consensus 494 iaIvG~sGsGKSTLl 508 (694)
T TIGR03375 494 VAIIGRIGSGKSTLL 508 (694)
T ss_pred EEEECCCCCCHHHHH
Confidence 567999999999433
No 202
>PRK11701 phnK phosphonate C-P lyase system protein PhnK; Provisional
Probab=25.40 E-value=28 Score=29.49 Aligned_cols=18 Identities=22% Similarity=0.237 Sum_probs=13.2
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
-.+|.||.|||=-|.+..
T Consensus 36 ~i~G~nGsGKSTLl~~l~ 53 (258)
T PRK11701 36 GIVGESGSGKTTLLNALS 53 (258)
T ss_pred EEECCCCCCHHHHHHHHh
Confidence 358999999996555443
No 203
>PRK14248 phosphate ABC transporter ATP-binding protein; Provisional
Probab=25.39 E-value=27 Score=29.76 Aligned_cols=19 Identities=16% Similarity=0.163 Sum_probs=14.4
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+-++|.||.|||=-|.+..
T Consensus 50 ~~i~G~nGsGKSTLl~~l~ 68 (268)
T PRK14248 50 TALIGPSGCGKSTFLRSIN 68 (268)
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 4579999999996655543
No 204
>PRK14242 phosphate transporter ATP-binding protein; Provisional
Probab=25.39 E-value=28 Score=29.21 Aligned_cols=18 Identities=17% Similarity=0.148 Sum_probs=13.6
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
-.+|.||.|||=-|.+..
T Consensus 36 ~i~G~nGsGKSTLl~~l~ 53 (253)
T PRK14242 36 ALIGPSGCGKSTFLRCLN 53 (253)
T ss_pred EEECCCCCCHHHHHHHHH
Confidence 468999999996655544
No 205
>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment. 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=25.34 E-value=28 Score=27.90 Aligned_cols=18 Identities=17% Similarity=0.196 Sum_probs=13.2
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
=.+|.||.|||=-+.+..
T Consensus 30 ~i~G~nGsGKSTLl~~l~ 47 (178)
T cd03229 30 ALLGPSGSGKSTLLRCIA 47 (178)
T ss_pred EEECCCCCCHHHHHHHHh
Confidence 368999999996554443
No 206
>PRK05480 uridine/cytidine kinase; Provisional
Probab=25.31 E-value=28 Score=28.43 Aligned_cols=14 Identities=21% Similarity=0.368 Sum_probs=11.0
Q ss_pred eeeeeccCCCceee
Q psy3060 108 LRFVGRSGREAEAS 121 (268)
Q Consensus 108 LRFVGRSGRGKsFt 121 (268)
+-.+|.||.|||.-
T Consensus 9 I~I~G~sGsGKTTl 22 (209)
T PRK05480 9 IGIAGGSGSGKTTV 22 (209)
T ss_pred EEEECCCCCCHHHH
Confidence 34689999999943
No 207
>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]
Probab=25.28 E-value=24 Score=33.93 Aligned_cols=18 Identities=28% Similarity=0.340 Sum_probs=14.8
Q ss_pred eeeeeccCCCceeeceEe
Q psy3060 108 LRFVGRSGREAEASPKDW 125 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~ 125 (268)
+-|+|.||+||+=+|...
T Consensus 30 ~vliGpSGsGKTTtLkMI 47 (309)
T COG1125 30 LVLIGPSGSGKTTTLKMI 47 (309)
T ss_pred EEEECCCCCcHHHHHHHH
Confidence 457999999999888654
No 208
>PRK11124 artP arginine transporter ATP-binding subunit; Provisional
Probab=25.24 E-value=28 Score=28.98 Aligned_cols=17 Identities=18% Similarity=0.208 Sum_probs=12.6
Q ss_pred eeeeccCCCceeeceEe
Q psy3060 109 RFVGRSGREAEASPKDW 125 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~ 125 (268)
-++|.||.|||=-+.+.
T Consensus 32 ~i~G~nGsGKSTLl~~l 48 (242)
T PRK11124 32 VLLGPSGAGKSSLLRVL 48 (242)
T ss_pred EEECCCCCCHHHHHHHH
Confidence 46799999999555443
No 209
>cd03298 ABC_ThiQ_thiamine_transporter ABC-type thiamine tranport system; part of the binding-protein-dependent transport system tbpA-thiPQ for thiamine and TPP. Probably responsible for the translocation of thiamine across the membrane. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=25.18 E-value=32 Score=27.97 Aligned_cols=18 Identities=22% Similarity=0.132 Sum_probs=13.5
Q ss_pred eeeeeccCCCceeeceEe
Q psy3060 108 LRFVGRSGREAEASPKDW 125 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~ 125 (268)
+-.+|+||.|||=-|.+.
T Consensus 27 ~~l~G~nGsGKSTLl~~l 44 (211)
T cd03298 27 TAIVGPSGSGKSTLLNLI 44 (211)
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 457899999998655544
No 210
>cd04145 M_R_Ras_like M-Ras/R-Ras-like subfamily. This subfamily contains R-Ras2/TC21, M-Ras/R-Ras3, and related members of the Ras family. M-Ras is expressed in lympho-hematopoetic cells. It interacts with some of the known Ras effectors, but appears to also have its own effectors. Expression of mutated M-Ras leads to transformation of several types of cell lines, including hematopoietic cells, mammary epithelial cells, and fibroblasts. Overexpression of M-Ras is observed in carcinomas from breast, uterus, thyroid, stomach, colon, kidney, lung, and rectum. In addition, expression of a constitutively active M-Ras mutant in murine bone marrow induces a malignant mast cell leukemia that is distinct from the monocytic leukemia induced by H-Ras. TC21, along with H-Ras, has been shown to regulate the branching morphogenesis of ureteric bud cell branching in mice. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an ali
Probab=25.11 E-value=28 Score=25.87 Aligned_cols=15 Identities=33% Similarity=0.346 Sum_probs=12.0
Q ss_pred eeeeeccCCCceeec
Q psy3060 108 LRFVGRSGREAEASP 122 (268)
Q Consensus 108 LRFVGRSGRGKsFtl 122 (268)
+=++|.+|.|||--+
T Consensus 5 i~i~G~~~~GKtsl~ 19 (164)
T cd04145 5 LVVVGGGGVGKSALT 19 (164)
T ss_pred EEEECCCCCcHHHHH
Confidence 447999999998643
No 211
>PRK14240 phosphate transporter ATP-binding protein; Provisional
Probab=25.07 E-value=28 Score=29.09 Aligned_cols=19 Identities=16% Similarity=0.174 Sum_probs=14.3
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+-.+|.||.|||=-|.+..
T Consensus 32 ~~i~G~nGsGKSTLl~~i~ 50 (250)
T PRK14240 32 TALIGPSGCGKSTFLRTLN 50 (250)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 3468999999996665554
No 212
>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in every eukaryote and is a key regulatory component for the transport of vesicles from the ER to the Golgi apparatus. Studies on mutations of Ypt1, the yeast homolog of Rab1, showed that this protein is necessary for the budding of vesicles of the ER as well as for their transport to, and fusion with, the Golgi apparatus. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to t
Probab=25.04 E-value=29 Score=26.28 Aligned_cols=12 Identities=33% Similarity=0.529 Sum_probs=10.3
Q ss_pred eeeeeccCCCce
Q psy3060 108 LRFVGRSGREAE 119 (268)
Q Consensus 108 LRFVGRSGRGKs 119 (268)
+=++|.+|.|||
T Consensus 5 i~i~G~~~vGKS 16 (166)
T cd01869 5 LLLIGDSGVGKS 16 (166)
T ss_pred EEEECCCCCCHH
Confidence 458999999997
No 213
>cd04127 Rab27A Rab27a subfamily. The Rab27a subfamily consists of Rab27a and its highly homologous isoform, Rab27b. Unlike most Rab proteins whose functions remain poorly defined, Rab27a has many known functions. Rab27a has multiple effector proteins, and depending on which effector it binds, Rab27a has different functions as well as tissue distribution and/or cellular localization. Putative functions have been assigned to Rab27a when associated with the effector proteins Slp1, Slp2, Slp3, Slp4, Slp5, DmSlp, rabphilin, Dm/Ce-rabphilin, Slac2-a, Slac2-b, Slac2-c, Noc2, JFC1, and Munc13-4. Rab27a has been associated with several human diseases, including hemophagocytic syndrome (Griscelli syndrome or GS), Hermansky-Pudlak syndrome, and choroidermia. In the case of GS, a rare, autosomal recessive disease, a Rab27a mutation is directly responsible for the disorder. When Rab27a is localized to the secretory granules of pancreatic beta cells, it is believed to mediate glucose-stimulated
Probab=25.03 E-value=29 Score=26.63 Aligned_cols=13 Identities=23% Similarity=0.314 Sum_probs=10.9
Q ss_pred eeeeeccCCCcee
Q psy3060 108 LRFVGRSGREAEA 120 (268)
Q Consensus 108 LRFVGRSGRGKsF 120 (268)
+=++|.+|.|||=
T Consensus 7 i~ivG~~~vGKTs 19 (180)
T cd04127 7 FLALGDSGVGKTS 19 (180)
T ss_pred EEEECCCCCCHHH
Confidence 4589999999974
No 214
>PRK13645 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=25.02 E-value=28 Score=30.21 Aligned_cols=18 Identities=11% Similarity=0.069 Sum_probs=13.4
Q ss_pred eeeeeccCCCceeeceEe
Q psy3060 108 LRFVGRSGREAEASPKDW 125 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~ 125 (268)
+-.+|+||.|||=-|.+.
T Consensus 40 ~~l~G~nGsGKSTLl~~l 57 (289)
T PRK13645 40 TCVIGTTGSGKSTMIQLT 57 (289)
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 346899999999655544
No 215
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=25.01 E-value=30 Score=26.52 Aligned_cols=13 Identities=15% Similarity=0.217 Sum_probs=10.5
Q ss_pred eeeccCCCceeec
Q psy3060 110 FVGRSGREAEASP 122 (268)
Q Consensus 110 FVGRSGRGKsFtl 122 (268)
|+|.+|.|||--|
T Consensus 24 i~G~Ng~GKStil 36 (202)
T PF13476_consen 24 IYGPNGSGKSTIL 36 (202)
T ss_dssp EEESTTSSHHHHH
T ss_pred EECCCCCCHHHHH
Confidence 6799999998544
No 216
>TIGR00968 3a0106s01 sulfate ABC transporter, ATP-binding protein.
Probab=24.91 E-value=29 Score=29.11 Aligned_cols=18 Identities=17% Similarity=0.217 Sum_probs=13.4
Q ss_pred eeeeeccCCCceeeceEe
Q psy3060 108 LRFVGRSGREAEASPKDW 125 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~ 125 (268)
+-++|+||.|||=-+.+.
T Consensus 29 ~~l~G~nGsGKSTLl~~i 46 (237)
T TIGR00968 29 VALLGPSGSGKSTLLRII 46 (237)
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 447899999999655444
No 217
>cd03290 ABCC_SUR1_N The SUR domain 1. The sulfonylurea receptor SUR is an ATP transporter of the ABCC/MRP family with tandem ATPase binding domains. Unlike other ABC proteins, it has no intrinsic transport function, neither active nor passive, but associates with the potassium channel proteins Kir6.1 or Kir6.2 to form the ATP-sensitive potassium (K(ATP)) channel. Within the channel complex, SUR serves as a regulatory subunit that fine-tunes the gating of Kir6.x in response to alterations in cellular metabolism. It constitutes a major pharmaceutical target as it binds numerous drugs, K(ATP) channel openers and blockers, capable of up- or down-regulating channel activity.
Probab=24.89 E-value=32 Score=28.15 Aligned_cols=20 Identities=20% Similarity=0.215 Sum_probs=15.3
Q ss_pred eeeeeccCCCceeeceEeee
Q psy3060 108 LRFVGRSGREAEASPKDWVG 127 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v~ 127 (268)
+-++|.||.|||=-|.+..+
T Consensus 30 ~~i~G~nGsGKSTLl~~i~G 49 (218)
T cd03290 30 TMIVGQVGCGKSSLLLAILG 49 (218)
T ss_pred EEEECCCCCCHHHHHHHHhc
Confidence 45789999999976666543
No 218
>PRK13639 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=24.85 E-value=28 Score=30.04 Aligned_cols=19 Identities=11% Similarity=0.195 Sum_probs=14.4
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+=++|+||.|||=-+.+..
T Consensus 31 ~~l~G~nGsGKSTLl~~i~ 49 (275)
T PRK13639 31 VALLGPNGAGKSTLFLHFN 49 (275)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 3468999999997666554
No 219
>cd04156 ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor suppressor gene 1), also known as Arl11, is a member of the Arf family of small GTPases that is believed to play a major role in apoptotic signaling. ARLTS1 is widely expressed and functions as a tumor suppressor gene in several human cancers. ARLTS1 is a low-penetrance suppressor that accounts for a small percentage of familial melanoma or familial chronic lymphocytic leukemia (CLL). ARLTS1 inactivation seems to occur most frequently through biallelic down-regulation by hypermethylation of the promoter. In breast cancer, ARLTS1 alterations were typically a combination of a hypomorphic polymorphism plus loss of heterozygosity. In a case of thyroid adenoma, ARLTS1 alterations were polymorphism plus promoter hypermethylation. The nonsense polymorphism Trp149Stop occurs with significantly greater frequency in familial cancer cases than in sporadic cancer cases, and the Cys148Arg polymorphism is associated with an increase in h
Probab=24.82 E-value=30 Score=25.81 Aligned_cols=13 Identities=8% Similarity=0.100 Sum_probs=10.8
Q ss_pred eeeeccCCCceee
Q psy3060 109 RFVGRSGREAEAS 121 (268)
Q Consensus 109 RFVGRSGRGKsFt 121 (268)
=++|.+|.|||=-
T Consensus 3 ~i~G~~~~GKTsl 15 (160)
T cd04156 3 LLLGLDSAGKSTL 15 (160)
T ss_pred EEEcCCCCCHHHH
Confidence 4799999999854
No 220
>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=24.79 E-value=29 Score=29.04 Aligned_cols=17 Identities=18% Similarity=0.130 Sum_probs=13.2
Q ss_pred eeeeccCCCceeeceEe
Q psy3060 109 RFVGRSGREAEASPKDW 125 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~ 125 (268)
-.+|.||.|||=-|.+.
T Consensus 25 ~l~G~nG~GKSTLl~~i 41 (176)
T cd03238 25 VVTGVSGSGKSTLVNEG 41 (176)
T ss_pred EEECCCCCCHHHHHHHH
Confidence 36899999999666544
No 221
>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. In members of Carb_Monos family the single hydrophobic gene product forms a homodimer, while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.
Probab=24.73 E-value=29 Score=27.90 Aligned_cols=18 Identities=11% Similarity=0.147 Sum_probs=13.7
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
-.+|.||.|||=-|.+..
T Consensus 30 ~i~G~nGsGKSTLl~~l~ 47 (182)
T cd03215 30 GIAGLVGNGQTELAEALF 47 (182)
T ss_pred EEECCCCCCHHHHHHHHh
Confidence 468999999996655544
No 222
>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional
Probab=24.73 E-value=29 Score=28.82 Aligned_cols=18 Identities=22% Similarity=0.124 Sum_probs=13.4
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
=.+|.||.|||=-|.+..
T Consensus 39 ~l~G~nGsGKSTLl~~l~ 56 (233)
T PRK11629 39 AIVGSSGSGKSTLLHLLG 56 (233)
T ss_pred EEECCCCCCHHHHHHHHh
Confidence 468999999996555443
No 223
>PRK10253 iron-enterobactin transporter ATP-binding protein; Provisional
Probab=24.71 E-value=29 Score=29.67 Aligned_cols=18 Identities=11% Similarity=0.200 Sum_probs=13.4
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
-++|.||.|||=-|.+..
T Consensus 37 ~i~G~nGsGKSTLl~~i~ 54 (265)
T PRK10253 37 AIIGPNGCGKSTLLRTLS 54 (265)
T ss_pred EEECCCCCCHHHHHHHHc
Confidence 468999999996555443
No 224
>PRK10895 lipopolysaccharide ABC transporter ATP-binding protein; Provisional
Probab=24.70 E-value=29 Score=28.87 Aligned_cols=19 Identities=16% Similarity=0.176 Sum_probs=13.8
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+-.+|.||.|||=-|.+..
T Consensus 32 ~~l~G~nGsGKSTLl~~l~ 50 (241)
T PRK10895 32 VGLLGPNGAGKTTTFYMVV 50 (241)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 3468999999996555543
No 225
>TIGR03005 ectoine_ehuA ectoine/hydroxyectoine ABC transporter, ATP-binding protein. Members of this family are the ATP-binding protein of a conserved four gene ABC transporter operon found next to ectoine unilization operons and ectoine biosynthesis operons. Ectoine is a compatible solute that protects enzymes from high osmolarity. It is released by some species in response to hypoosmotic shock, and it is taken up by a number of bacteria as a compatible solute or for consumption. This family shows strong sequence similiarity to a number of amino acid ABC transporter ATP-binding proteins.
Probab=24.59 E-value=29 Score=29.14 Aligned_cols=18 Identities=17% Similarity=0.267 Sum_probs=13.1
Q ss_pred eeeeeccCCCceeeceEe
Q psy3060 108 LRFVGRSGREAEASPKDW 125 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~ 125 (268)
+-++|.||.|||=-+.+.
T Consensus 29 ~~i~G~nGsGKSTLl~~l 46 (252)
T TIGR03005 29 VALIGPSGSGKSTILRIL 46 (252)
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 346899999999655443
No 226
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=24.58 E-value=28 Score=27.40 Aligned_cols=14 Identities=14% Similarity=0.214 Sum_probs=11.3
Q ss_pred eeeeccCCCceeec
Q psy3060 109 RFVGRSGREAEASP 122 (268)
Q Consensus 109 RFVGRSGRGKsFtl 122 (268)
=+.|.+|.|||+-+
T Consensus 36 ~i~g~~g~GKT~~~ 49 (193)
T PF13481_consen 36 LIAGPPGSGKTTLA 49 (193)
T ss_dssp EEEECSTSSHHHHH
T ss_pred EEEeCCCCCHHHHH
Confidence 47899999999643
No 227
>PRK10619 histidine/lysine/arginine/ornithine transporter subunit; Provisional
Probab=24.55 E-value=29 Score=29.32 Aligned_cols=18 Identities=17% Similarity=0.167 Sum_probs=13.3
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
-++|.||.|||=-+.+..
T Consensus 35 ~l~G~nGsGKSTLl~~i~ 52 (257)
T PRK10619 35 SIIGSSGSGKSTFLRCIN 52 (257)
T ss_pred EEECCCCCCHHHHHHHHh
Confidence 468999999986555443
No 228
>cd01849 YlqF_related_GTPase YlqF-related GTPases. These proteins are found in bacteria, eukaryotes, and archaea. They all exhibit a circular permutation of the GTPase signature motifs so that the order of the conserved G box motifs is G4-G5-G1-G2-G3, with G4 and G5 being permuted from the C-terminal region of proteins in the Ras superfamily to the N-terminus of YlqF-related GTPases.
Probab=24.54 E-value=33 Score=26.76 Aligned_cols=48 Identities=13% Similarity=0.082 Sum_probs=27.1
Q ss_pred EEEEeecCCCccccccccceeee---------ccc-eeeecceeeeeccCCCceeeceE
Q psy3060 76 IVTIRAGNDENYCGELRNCTAVM---------KNQ-VAKFNDLRFVGRSGREAEASPKD 124 (268)
Q Consensus 76 ~Vtv~AGNDEN~~AELRN~tAvM---------KNq-VArFNDLRFVGRSGRGKsFtlti 124 (268)
.+.++|-++++ ..+|++..... ++. ..+=-.+-++|++|.|||--+..
T Consensus 62 ii~vSa~~~~g-i~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~~GKstlin~ 119 (155)
T cd01849 62 PFKISATNGQG-IEKKESAFTKQTNSNLKSYAKDGKLKKSITVGVIGYPNVGKSSVINA 119 (155)
T ss_pred EEEEeccCCcC-hhhHHHHHHHHhHHHHHHHHhccccccCcEEEEEccCCCCHHHHHHH
Confidence 56677777665 45565533110 000 01112366999999999975543
No 229
>PRK09473 oppD oligopeptide transporter ATP-binding component; Provisional
Probab=24.53 E-value=26 Score=31.74 Aligned_cols=21 Identities=29% Similarity=0.417 Sum_probs=15.7
Q ss_pred eeeeeccCCCceeeceEeeee
Q psy3060 108 LRFVGRSGREAEASPKDWVGT 128 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v~t 128 (268)
+=+||.||.|||=-+.+..+-
T Consensus 45 ~~ivG~sGsGKSTL~~~l~Gl 65 (330)
T PRK09473 45 LGIVGESGSGKSQTAFALMGL 65 (330)
T ss_pred EEEECCCCchHHHHHHHHHcC
Confidence 457999999999766655443
No 230
>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH. This family describes YqeH, a member of a larger family of GTPases involved in ribosome biogenesis. Like YqlF, it shows a cyclical permutation relative to GTPases EngA (in which the GTPase domain is duplicated), Era, and others. Members of this protein family are found in a relatively small number of bacterial species, including Bacillus subtilis but not Escherichia coli.
Probab=24.50 E-value=30 Score=31.82 Aligned_cols=39 Identities=21% Similarity=0.285 Sum_probs=24.3
Q ss_pred EEEEeecCCCccccccccceeeeccceeeecceeeeeccCCCce
Q psy3060 76 IVTIRAGNDENYCGELRNCTAVMKNQVAKFNDLRFVGRSGREAE 119 (268)
Q Consensus 76 ~Vtv~AGNDEN~~AELRN~tAvMKNqVArFNDLRFVGRSGRGKs 119 (268)
.+.++|-+.+| ..||.+......+. .++=|||++|.|||
T Consensus 130 i~~vSAk~g~g-v~eL~~~l~~~~~~----~~v~~vG~~nvGKS 168 (360)
T TIGR03597 130 IILVSAKKGNG-IDELLDKIKKARNK----KDVYVVGVTNVGKS 168 (360)
T ss_pred EEEecCCCCCC-HHHHHHHHHHHhCC----CeEEEECCCCCCHH
Confidence 45667777666 34444433222221 47889999999996
No 231
>PRK14267 phosphate ABC transporter ATP-binding protein; Provisional
Probab=24.44 E-value=29 Score=29.06 Aligned_cols=19 Identities=16% Similarity=0.240 Sum_probs=13.9
Q ss_pred eeeeccCCCceeeceEeee
Q psy3060 109 RFVGRSGREAEASPKDWVG 127 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v~ 127 (268)
=.+|.||.|||=-+.+..+
T Consensus 34 ~l~G~nGsGKSTLl~~l~G 52 (253)
T PRK14267 34 ALMGPSGCGKSTLLRTFNR 52 (253)
T ss_pred EEECCCCCCHHHHHHHHhc
Confidence 3689999999966555443
No 232
>PRK14273 phosphate ABC transporter ATP-binding protein; Provisional
Probab=24.38 E-value=30 Score=29.14 Aligned_cols=20 Identities=15% Similarity=0.149 Sum_probs=14.4
Q ss_pred eeeeeccCCCceeeceEeee
Q psy3060 108 LRFVGRSGREAEASPKDWVG 127 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v~ 127 (268)
+-.+|.||.|||=-|.+..+
T Consensus 36 ~~i~G~nGsGKSTLl~~l~G 55 (254)
T PRK14273 36 TALIGPSGCGKSTFLRTLNR 55 (254)
T ss_pred EEEECCCCCCHHHHHHHHhc
Confidence 34689999999976555443
No 233
>PRK13647 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=24.35 E-value=29 Score=30.09 Aligned_cols=20 Identities=15% Similarity=0.197 Sum_probs=15.3
Q ss_pred eeeeeccCCCceeeceEeee
Q psy3060 108 LRFVGRSGREAEASPKDWVG 127 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v~ 127 (268)
+-++|.||.|||=-+.+..+
T Consensus 34 ~~i~G~nGsGKSTLl~~l~G 53 (274)
T PRK13647 34 TALLGPNGAGKSTLLLHLNG 53 (274)
T ss_pred EEEECCCCCcHHHHHHHHhc
Confidence 45789999999977766543
No 234
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=24.35 E-value=24 Score=25.73 Aligned_cols=18 Identities=17% Similarity=0.158 Sum_probs=13.0
Q ss_pred eeeccCCCceeeceEeee
Q psy3060 110 FVGRSGREAEASPKDWVG 127 (268)
Q Consensus 110 FVGRSGRGKsFtlti~v~ 127 (268)
+.|-+|.||+..+.=...
T Consensus 9 i~G~~G~GKT~~~~~~~~ 26 (131)
T PF13401_consen 9 ISGPPGSGKTTLIKRLAR 26 (131)
T ss_dssp EEE-TTSSHHHHHHHHHH
T ss_pred EEcCCCCCHHHHHHHHHH
Confidence 679999999987765443
No 235
>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=24.26 E-value=30 Score=28.27 Aligned_cols=17 Identities=18% Similarity=0.153 Sum_probs=12.6
Q ss_pred eeeeeccCCCceeeceE
Q psy3060 108 LRFVGRSGREAEASPKD 124 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti 124 (268)
+=.+|.||.|||=-|.+
T Consensus 26 ~~i~G~nGsGKSTLl~~ 42 (214)
T cd03297 26 TGIFGASGAGKSTLLRC 42 (214)
T ss_pred EEEECCCCCCHHHHHHH
Confidence 45789999999854443
No 236
>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=24.25 E-value=35 Score=30.50 Aligned_cols=12 Identities=17% Similarity=0.293 Sum_probs=11.0
Q ss_pred eeccCCCceeec
Q psy3060 111 VGRSGREAEASP 122 (268)
Q Consensus 111 VGRSGRGKsFtl 122 (268)
.|-+|.||+||+
T Consensus 80 yG~tgSGKT~Tm 91 (341)
T cd01372 80 YGQTGSGKTYTM 91 (341)
T ss_pred ecCCCCCCcEEe
Confidence 689999999997
No 237
>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA. This model describes the cyt c biogenesis protein encoded by ccmA in bacteria. An exception is, an arabidopsis protein. Quite likely this is encoded by an organelle. Bacterial c-type cytocromes are located on the periplasmic side of the cytoplasmic membrane. Several gene products encoded in a locus designated as 'ccm' are implicated in the transport and assembly of the functional cytochrome C. This cluster includes genes: ccmA;B;C;D;E;F;G and H. The posttranslational pathway includes the transport of heme moiety, the secretion of the apoprotein and the covalent attachment of the heme with the apoprotein. The proteins ccmA and B represent an ABC transporter; ccmC and D participate in heme transfer to ccmE, which function as a periplasmic heme chaperone. The presence of ccmF, G and H is suggested to be obligatory for the final functional assembly of cytochrome c.
Probab=24.24 E-value=30 Score=28.00 Aligned_cols=17 Identities=12% Similarity=0.110 Sum_probs=12.8
Q ss_pred eeeeccCCCceeeceEe
Q psy3060 109 RFVGRSGREAEASPKDW 125 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~ 125 (268)
=++|.||.|||=-+.+.
T Consensus 30 ~i~G~nGsGKSTLl~~l 46 (198)
T TIGR01189 30 QVTGPNGIGKTTLLRIL 46 (198)
T ss_pred EEECCCCCCHHHHHHHH
Confidence 46899999998555443
No 238
>PRK13646 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=24.23 E-value=30 Score=30.19 Aligned_cols=19 Identities=16% Similarity=0.254 Sum_probs=14.4
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+-++|.||.|||=-+.+..
T Consensus 36 ~~i~G~nGsGKSTLl~~L~ 54 (286)
T PRK13646 36 YAIVGQTGSGKSTLIQNIN 54 (286)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 4578999999997665543
No 239
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=24.22 E-value=76 Score=29.33 Aligned_cols=90 Identities=13% Similarity=0.224 Sum_probs=52.7
Q ss_pred hhhHHhhcCCCCccccCCCceEEeecCcccccCCCCCcceEEEEee-e-cCCCe-EEEEeecCCCccc-ccccc------
Q psy3060 24 TLDSLLAEHPGELTRTGCPHVVCTVLPTHWRSNKTLPVAFKVVALG-D-VMDGT-IVTIRAGNDENYC-GELRN------ 93 (268)
Q Consensus 24 ~l~~~l~eh~geLV~T~sP~~lCs~LP~HWRsNKtLP~aFkVvaLg-~-VpDGT-~Vtv~AGNDEN~~-AELRN------ 93 (268)
.+.+.++...|.-+...+|.+-|. ||. ..+|-+.. + +++|+ .++|+--...+++ .+|..
T Consensus 58 ~l~~~ia~~~~~~i~~~~P~l~~~-Lp~----------G~Rv~~~~~p~~~~~~~~~~IRk~~~~~~sl~~l~~~g~~~~ 126 (332)
T PRK13900 58 ALGRLVAQATEQKISEEKPLLSAT-LPN----------GYRIQIVFPPACEIGQIVYSIRKPSGMQLTLDDYEKMGAFDE 126 (332)
T ss_pred HHHHHHHHHcCCcccCCCceEEEE-cCC----------CeEEEEEcCCcccCCCceEEEECCCCCCCCHHHHHhcCCCCc
Confidence 456777788888888899966665 554 33443332 2 34555 5788876654332 22210
Q ss_pred ----------------------ceeeeccceeeecceeeeeccCCCceeeceE
Q psy3060 94 ----------------------CTAVMKNQVAKFNDLRFVGRSGREAEASPKD 124 (268)
Q Consensus 94 ----------------------~tAvMKNqVArFNDLRFVGRSGRGKsFtlti 124 (268)
..+.++..|..--.+=++|..|.||+=.|.-
T Consensus 127 ~~~~~~~~~~~~~l~~~~~~~~~~~~L~~~v~~~~nili~G~tgSGKTTll~a 179 (332)
T PRK13900 127 TATESLVDEDDVILNELLAEKKIKEFLEHAVISKKNIIISGGTSTGKTTFTNA 179 (332)
T ss_pred ccccccccchhhhhhhhhhhHHHHHHHHHHHHcCCcEEEECCCCCCHHHHHHH
Confidence 0122333333344577999999999976643
No 240
>PRK13632 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=24.19 E-value=30 Score=29.76 Aligned_cols=17 Identities=18% Similarity=0.268 Sum_probs=12.5
Q ss_pred eeeeccCCCceeeceEe
Q psy3060 109 RFVGRSGREAEASPKDW 125 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~ 125 (268)
=++|+||.|||=-|.+.
T Consensus 39 ~l~G~nGsGKSTLl~~l 55 (271)
T PRK13632 39 AILGHNGSGKSTISKIL 55 (271)
T ss_pred EEECCCCCCHHHHHHHH
Confidence 36899999999554443
No 241
>PRK09493 glnQ glutamine ABC transporter ATP-binding protein; Reviewed
Probab=24.07 E-value=30 Score=28.74 Aligned_cols=18 Identities=17% Similarity=0.134 Sum_probs=13.4
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
=.+|.||.|||=-|.+..
T Consensus 31 ~l~G~nGsGKSTLl~~l~ 48 (240)
T PRK09493 31 VIIGPSGSGKSTLLRCIN 48 (240)
T ss_pred EEECCCCCCHHHHHHHHh
Confidence 368999999996655544
No 242
>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.
Probab=23.98 E-value=31 Score=27.17 Aligned_cols=20 Identities=30% Similarity=0.365 Sum_probs=15.0
Q ss_pred eeeeccCCCceeeceEeeee
Q psy3060 109 RFVGRSGREAEASPKDWVGT 128 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v~t 128 (268)
-.+|+||.|||=-+.+..+.
T Consensus 30 ~i~G~nGsGKStLl~~l~G~ 49 (144)
T cd03221 30 GLVGRNGAGKSTLLKLIAGE 49 (144)
T ss_pred EEECCCCCCHHHHHHHHcCC
Confidence 47899999999666655443
No 243
>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.
Probab=23.94 E-value=31 Score=27.86 Aligned_cols=14 Identities=21% Similarity=0.361 Sum_probs=11.0
Q ss_pred eeeccCCCceeece
Q psy3060 110 FVGRSGREAEASPK 123 (268)
Q Consensus 110 FVGRSGRGKsFtlt 123 (268)
.+|.||.|||-...
T Consensus 4 i~G~~GsGKSTl~~ 17 (198)
T cd02023 4 IAGGSGSGKTTVAE 17 (198)
T ss_pred EECCCCCCHHHHHH
Confidence 57999999995443
No 244
>TIGR03411 urea_trans_UrtD urea ABC transporter, ATP-binding protein UrtD. Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.
Probab=23.93 E-value=31 Score=28.66 Aligned_cols=19 Identities=11% Similarity=0.069 Sum_probs=14.2
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+-.+|.||.|||=-|.+..
T Consensus 31 ~~l~G~nGsGKSTLl~~l~ 49 (242)
T TIGR03411 31 RVIIGPNGAGKTTMMDVIT 49 (242)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 3478999999996665544
No 245
>PRK13547 hmuV hemin importer ATP-binding subunit; Provisional
Probab=23.86 E-value=30 Score=30.25 Aligned_cols=19 Identities=26% Similarity=0.448 Sum_probs=14.4
Q ss_pred eeeeccCCCceeeceEeee
Q psy3060 109 RFVGRSGREAEASPKDWVG 127 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v~ 127 (268)
=++|+||.|||=-|.+..+
T Consensus 31 ~l~G~nGsGKSTLl~~laG 49 (272)
T PRK13547 31 ALLGRNGAGKSTLLKALAG 49 (272)
T ss_pred EEECCCCCCHHHHHHHHhC
Confidence 4789999999966665544
No 246
>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily. Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.
Probab=23.85 E-value=32 Score=26.76 Aligned_cols=17 Identities=18% Similarity=0.182 Sum_probs=12.9
Q ss_pred eeeeccCCCceeeceEe
Q psy3060 109 RFVGRSGREAEASPKDW 125 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~ 125 (268)
=++|-+|.|||--....
T Consensus 7 ~i~G~~GsGKsTl~~~l 23 (188)
T TIGR01360 7 FIVGGPGSGKGTQCEKI 23 (188)
T ss_pred EEECCCCCCHHHHHHHH
Confidence 47899999999765433
No 247
>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=23.75 E-value=32 Score=23.91 Aligned_cols=20 Identities=15% Similarity=0.262 Sum_probs=15.2
Q ss_pred ceeeeeccCCCceeeceEee
Q psy3060 107 DLRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 107 DLRFVGRSGRGKsFtlti~v 126 (268)
-+-++|-+|.||+..+....
T Consensus 21 ~v~i~G~~G~GKT~l~~~i~ 40 (151)
T cd00009 21 NLLLYGPPGTGKTTLARAIA 40 (151)
T ss_pred eEEEECCCCCCHHHHHHHHH
Confidence 46789999999997554443
No 248
>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=23.74 E-value=50 Score=27.64 Aligned_cols=16 Identities=19% Similarity=0.273 Sum_probs=12.3
Q ss_pred eeeeccCCCceeeceE
Q psy3060 109 RFVGRSGREAEASPKD 124 (268)
Q Consensus 109 RFVGRSGRGKsFtlti 124 (268)
-++|.||.||+=-|.+
T Consensus 26 ~i~G~NGsGKTTLl~a 41 (204)
T cd03240 26 LIVGQNGAGKTTIIEA 41 (204)
T ss_pred EEECCCCCCHHHHHHH
Confidence 4689999999855554
No 249
>cd01862 Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-
Probab=23.68 E-value=31 Score=25.81 Aligned_cols=15 Identities=20% Similarity=0.237 Sum_probs=11.7
Q ss_pred eeeeeccCCCceeec
Q psy3060 108 LRFVGRSGREAEASP 122 (268)
Q Consensus 108 LRFVGRSGRGKsFtl 122 (268)
+=++|++|.|||--+
T Consensus 3 i~viG~~~~GKSsl~ 17 (172)
T cd01862 3 VIILGDSGVGKTSLM 17 (172)
T ss_pred EEEECCCCCCHHHHH
Confidence 347999999998643
No 250
>PRK11545 gntK gluconate kinase 1; Provisional
Probab=23.67 E-value=27 Score=28.24 Aligned_cols=13 Identities=31% Similarity=0.401 Sum_probs=10.9
Q ss_pred eeccCCCceeece
Q psy3060 111 VGRSGREAEASPK 123 (268)
Q Consensus 111 VGRSGRGKsFtlt 123 (268)
+|-||.|||--+.
T Consensus 1 ~G~sGsGKSTla~ 13 (163)
T PRK11545 1 MGVSGSGKSAVAS 13 (163)
T ss_pred CCCCCCcHHHHHH
Confidence 5899999997665
No 251
>PRK13159 cytochrome c-type biogenesis protein CcmE; Reviewed
Probab=23.66 E-value=1e+02 Score=26.85 Aligned_cols=33 Identities=33% Similarity=0.516 Sum_probs=27.3
Q ss_pred CCCCcceE----EEEeeecCCCeE--EEEeecCCCcccc
Q psy3060 57 KTLPVAFK----VVALGDVMDGTI--VTIRAGNDENYCG 89 (268)
Q Consensus 57 KtLP~aFk----VvaLg~VpDGT~--Vtv~AGNDEN~~A 89 (268)
--||..|| ||+-|...||+- -+|.|.-||||..
T Consensus 91 GilPDlFrEGqgVVaeG~~~~g~F~A~~vLAKHde~YmP 129 (155)
T PRK13159 91 GILPDLFRDNQSVIANGRMQGGRFVANEVLAKHDETYMP 129 (155)
T ss_pred cCCCccccCCCeEEEEEEEcCCEEEEeEEEecCCCcCCC
Confidence 36888885 999998888984 4899999999973
No 252
>PRK13543 cytochrome c biogenesis protein CcmA; Provisional
Probab=23.62 E-value=31 Score=28.42 Aligned_cols=18 Identities=11% Similarity=0.071 Sum_probs=13.3
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
-++|.||.|||=-+.+..
T Consensus 41 ~i~G~nGsGKSTLl~~i~ 58 (214)
T PRK13543 41 LVQGDNGAGKTTLLRVLA 58 (214)
T ss_pred EEEcCCCCCHHHHHHHHh
Confidence 368999999996554443
No 253
>cd00157 Rho Rho (Ras homology) family. Members of the Rho family include RhoA, Cdc42, Rac, Rnd, Wrch1, RhoBTB, and Rop. There are 22 human Rho family members identified currently. These proteins are all involved in the reorganization of the actin cytoskeleton in response to external stimuli. They also have roles in cell transformation by Ras in cytokinesis, in focal adhesion formation and in the stimulation of stress-activated kinase. These various functions are controlled through distinct effector proteins and mediated through a GTP-binding/GTPase cycle involving three classes of regulating proteins: GAPs (GTPase-activating proteins), GEFs (guanine nucleotide exchange factors), and GDIs (guanine nucleotide dissociation inhibitors). Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho protein
Probab=23.55 E-value=32 Score=25.73 Aligned_cols=12 Identities=17% Similarity=0.230 Sum_probs=10.2
Q ss_pred eeeeeccCCCce
Q psy3060 108 LRFVGRSGREAE 119 (268)
Q Consensus 108 LRFVGRSGRGKs 119 (268)
+-++|.+|.|||
T Consensus 3 i~i~G~~~~GKS 14 (171)
T cd00157 3 IVVVGDGAVGKT 14 (171)
T ss_pred EEEECCCCCCHH
Confidence 358999999997
No 254
>cd03220 ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and teichoic acids have been shown to be exported by ABC transporters. A typical system is made of a conserved integral membrane and an ABC. In addition to these proteins, capsular polysaccharide exporter systems require two 'accessory' proteins to perform their function: a periplasmic (E.coli) or a lipid-anchored outer membrane protein called OMA (Neisseria meningitidis and Haemophilus influenzae) and a cytoplasmic membrane protein MPA2.
Probab=23.53 E-value=31 Score=28.80 Aligned_cols=18 Identities=17% Similarity=0.291 Sum_probs=13.6
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
-++|+||.|||=-+.+..
T Consensus 52 ~i~G~nGsGKSTLl~~l~ 69 (224)
T cd03220 52 GLIGRNGAGKSTLLRLLA 69 (224)
T ss_pred EEECCCCCCHHHHHHHHh
Confidence 468999999996555544
No 255
>PRK09580 sufC cysteine desulfurase ATPase component; Reviewed
Probab=23.47 E-value=32 Score=28.59 Aligned_cols=21 Identities=14% Similarity=0.262 Sum_probs=15.7
Q ss_pred eeeeeccCCCceeeceEeeee
Q psy3060 108 LRFVGRSGREAEASPKDWVGT 128 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v~t 128 (268)
+-++|.||.|||=-+.+..+-
T Consensus 30 ~~i~G~nGsGKSTLl~~l~Gl 50 (248)
T PRK09580 30 HAIMGPNGSGKSTLSATLAGR 50 (248)
T ss_pred EEEECCCCCCHHHHHHHHcCC
Confidence 467999999999666655543
No 256
>PRK11022 dppD dipeptide transporter ATP-binding subunit; Provisional
Probab=23.46 E-value=30 Score=31.25 Aligned_cols=20 Identities=30% Similarity=0.443 Sum_probs=15.3
Q ss_pred eeeeeccCCCceeeceEeee
Q psy3060 108 LRFVGRSGREAEASPKDWVG 127 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v~ 127 (268)
+-+||.||.|||=.+.+..+
T Consensus 36 ~~lvG~sGsGKSTL~~~l~G 55 (326)
T PRK11022 36 VGIVGESGSGKSVSSLAIMG 55 (326)
T ss_pred EEEECCCCChHHHHHHHHHc
Confidence 45799999999977665544
No 257
>PRK13548 hmuV hemin importer ATP-binding subunit; Provisional
Probab=23.44 E-value=32 Score=29.40 Aligned_cols=19 Identities=11% Similarity=0.221 Sum_probs=13.9
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+=++|.||.|||=-|.+..
T Consensus 31 ~~i~G~nGsGKSTLl~~i~ 49 (258)
T PRK13548 31 VAILGPNGAGKSTLLRALS 49 (258)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 3478999999996555443
No 258
>TIGR02769 nickel_nikE nickel import ATP-binding protein NikE. This family represents the NikE subunit of a multisubunit nickel import ABC transporter complex. Nickel, once imported, may be used in urease and in certain classes of hydrogenase and superoxide dismutase.
Probab=23.33 E-value=32 Score=29.41 Aligned_cols=19 Identities=21% Similarity=0.354 Sum_probs=13.8
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+=.+|.||.|||=-|.+..
T Consensus 40 ~~i~G~nGsGKSTLl~~l~ 58 (265)
T TIGR02769 40 VGLLGRSGCGKSTLARLLL 58 (265)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 3468999999996655443
No 259
>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]
Probab=23.32 E-value=19 Score=34.05 Aligned_cols=18 Identities=17% Similarity=0.169 Sum_probs=15.2
Q ss_pred eeeeeccCCCceeeceEe
Q psy3060 108 LRFVGRSGREAEASPKDW 125 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~ 125 (268)
+=++|-||+|||=+|.+.
T Consensus 32 ~vllGPSGcGKSTlLr~I 49 (338)
T COG3839 32 VVLLGPSGCGKSTLLRMI 49 (338)
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 457899999999888765
No 260
>PLN03073 ABC transporter F family; Provisional
Probab=23.32 E-value=32 Score=34.99 Aligned_cols=19 Identities=21% Similarity=0.225 Sum_probs=15.1
Q ss_pred eeeeccCCCceeeceEeee
Q psy3060 109 RFVGRSGREAEASPKDWVG 127 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v~ 127 (268)
=+||+||.|||=-|.+..+
T Consensus 207 gLvG~NGsGKSTLLr~l~g 225 (718)
T PLN03073 207 GLVGRNGTGKTTFLRYMAM 225 (718)
T ss_pred EEECCCCCCHHHHHHHHcC
Confidence 3699999999977777643
No 261
>cd07386 MPP_DNA_pol_II_small_archeal_C archeal DNA polymerase II, small subunit, C-terminal metallophosphatase domain. The small subunit of the archeal DNA polymerase II contains a C-terminal metallophosphatase domain. This domain is thought to be functionally active because the active site residues required for phosphoesterase activity in other members of this superfamily are intact. The archeal replicative DNA polymerases are thought to possess intrinsic phosphatase activity that hydrolyzes the pyrophosphate released during nucleotide polymerization. This domain belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiestera
Probab=23.29 E-value=1.1e+02 Score=25.99 Aligned_cols=20 Identities=25% Similarity=0.282 Sum_probs=16.6
Q ss_pred eecCCCeEEEEeecCCCccc
Q psy3060 69 GDVMDGTIVTIRAGNDENYC 88 (268)
Q Consensus 69 g~VpDGT~Vtv~AGNDEN~~ 88 (268)
.+...++.|.+.+||-+.+.
T Consensus 76 ~~L~~~~~v~~ipGNHD~~~ 95 (243)
T cd07386 76 SDVPSHIKIIIIPGNHDAVR 95 (243)
T ss_pred HhcccCCeEEEeCCCCCccc
Confidence 56778899999999988753
No 262
>PRK14262 phosphate ABC transporter ATP-binding protein; Provisional
Probab=23.16 E-value=32 Score=28.75 Aligned_cols=19 Identities=16% Similarity=0.158 Sum_probs=14.2
Q ss_pred eeeeccCCCceeeceEeee
Q psy3060 109 RFVGRSGREAEASPKDWVG 127 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v~ 127 (268)
-.+|.||.|||=-|.+..+
T Consensus 33 ~i~G~nGsGKSTLl~~i~G 51 (250)
T PRK14262 33 AIIGPSGCGKTTLLRSINR 51 (250)
T ss_pred EEECCCCCCHHHHHHHHhc
Confidence 3689999999976655543
No 263
>TIGR03719 ABC_ABC_ChvD ATP-binding cassette protein, ChvD family. Members of this protein family have two copies of the ABC transporter ATP-binding cassette, but are found outside the common ABC transporter operon structure that features integral membrane permease proteins and substrate-binding proteins encoded next to the ATP-binding cassette (ABC domain) protein. The member protein ChvD from Agrobacterium tumefaciens was identified as both a candidate to interact with VirB8, based on yeast two-hybrid analysis, and as an apparent regulator of VirG. The general function of this protein family is unknown.
Probab=23.16 E-value=32 Score=32.78 Aligned_cols=18 Identities=11% Similarity=0.102 Sum_probs=13.7
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
=++|+||+|||=-|.+.-
T Consensus 35 ~liG~NGsGKSTLl~~i~ 52 (552)
T TIGR03719 35 GVLGLNGAGKSTLLRIMA 52 (552)
T ss_pred EEECCCCCCHHHHHHHHh
Confidence 468999999996655543
No 264
>PRK14247 phosphate ABC transporter ATP-binding protein; Provisional
Probab=23.13 E-value=32 Score=28.75 Aligned_cols=20 Identities=15% Similarity=0.192 Sum_probs=14.5
Q ss_pred eeeeeccCCCceeeceEeee
Q psy3060 108 LRFVGRSGREAEASPKDWVG 127 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v~ 127 (268)
+=.+|.||.|||=-|.+..+
T Consensus 32 ~~i~G~nGsGKSTLl~~i~G 51 (250)
T PRK14247 32 TALMGPSGSGKSTLLRVFNR 51 (250)
T ss_pred EEEECCCCCCHHHHHHHHhc
Confidence 34689999999966655543
No 265
>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=23.12 E-value=33 Score=27.02 Aligned_cols=14 Identities=29% Similarity=0.572 Sum_probs=11.3
Q ss_pred ceeeeeccCCCcee
Q psy3060 107 DLRFVGRSGREAEA 120 (268)
Q Consensus 107 DLRFVGRSGRGKsF 120 (268)
.+=++|++|.|||=
T Consensus 20 ~i~ivG~~~~GKSt 33 (179)
T TIGR03598 20 EIAFAGRSNVGKSS 33 (179)
T ss_pred EEEEEcCCCCCHHH
Confidence 34679999999983
No 266
>PRK14270 phosphate ABC transporter ATP-binding protein; Provisional
Probab=23.08 E-value=32 Score=28.85 Aligned_cols=19 Identities=16% Similarity=0.118 Sum_probs=13.8
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+-.+|+||.|||=-+.+..
T Consensus 33 ~~i~G~nGsGKSTLl~~l~ 51 (251)
T PRK14270 33 TALIGPSGCGKSTFLRCLN 51 (251)
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 3478999999986555444
No 267
>TIGR02203 MsbA_lipidA lipid A export permease/ATP-binding protein MsbA. This family consists of a single polypeptide chain transporter in the ATP-binding cassette (ABC) transporter family, MsbA, which exports lipid A. It may also act in multidrug resistance. Lipid A, a part of lipopolysaccharide, is found in the outer leaflet of the outer membrane of most Gram-negative bacteria. Members of this family are restricted to the Proteobacteria (although lipid A is more broadly distributed) and often are clustered with lipid A biosynthesis genes.
Probab=23.07 E-value=30 Score=32.34 Aligned_cols=15 Identities=33% Similarity=0.397 Sum_probs=11.4
Q ss_pred eeeccCCCceeeceE
Q psy3060 110 FVGRSGREAEASPKD 124 (268)
Q Consensus 110 FVGRSGRGKsFtlti 124 (268)
.+|+||.|||==+.+
T Consensus 363 IvG~sGsGKSTLl~l 377 (571)
T TIGR02203 363 LVGRSGSGKSTLVNL 377 (571)
T ss_pred EECCCCCCHHHHHHH
Confidence 699999999943333
No 268
>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=23.02 E-value=25 Score=28.50 Aligned_cols=18 Identities=17% Similarity=0.261 Sum_probs=12.7
Q ss_pred eeeeeccCCCceeeceEe
Q psy3060 108 LRFVGRSGREAEASPKDW 125 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~ 125 (268)
+=..|.+|.|||..|.-.
T Consensus 41 ~li~G~tgsGKS~~l~~l 58 (205)
T PF01580_consen 41 LLIAGATGSGKSTLLRTL 58 (205)
T ss_dssp EEEE--TTSSHHHHHHHH
T ss_pred EEEEcCCCCCccHHHHHH
Confidence 457899999999988744
No 269
>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases. Arf proteins are activators of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. Arfs are N-terminally myristoylated. Members of the Arf family are regulators of vesicle formation in intracellular traffic that interact reversibly with membranes of the secretory and endocytic compartments in a GTP-dependent manner. They depart from other small GTP-binding proteins by a unique structural device, interswitch toggle, that implements front-back communication from N-terminus to the nucleotide binding site. Arf-like (Arl) proteins are close relatives of the Arf, but only Arl1 has been shown to function in membrane traffic like the Arf proteins. Arl2 has an unrelated function in the folding of native tubulin, and Arl4 may function in the nucleus. Most other Arf family proteins are so far relatively poorly characterized. Thu
Probab=23.01 E-value=40 Score=25.17 Aligned_cols=12 Identities=17% Similarity=0.362 Sum_probs=10.3
Q ss_pred eeeeeccCCCce
Q psy3060 108 LRFVGRSGREAE 119 (268)
Q Consensus 108 LRFVGRSGRGKs 119 (268)
+=++|.+|.|||
T Consensus 2 i~iiG~~~~GKs 13 (158)
T cd00878 2 ILILGLDGAGKT 13 (158)
T ss_pred EEEEcCCCCCHH
Confidence 457999999997
No 270
>PRK14255 phosphate ABC transporter ATP-binding protein; Provisional
Probab=22.91 E-value=33 Score=28.74 Aligned_cols=19 Identities=16% Similarity=0.190 Sum_probs=14.0
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+-.+|.||.|||==|.+..
T Consensus 34 ~~l~G~nGsGKSTLl~~l~ 52 (252)
T PRK14255 34 TALIGPSGCGKSTYLRTLN 52 (252)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 4578999999996555443
No 271
>PRK11300 livG leucine/isoleucine/valine transporter ATP-binding subunit; Provisional
Probab=22.87 E-value=33 Score=28.70 Aligned_cols=18 Identities=11% Similarity=0.167 Sum_probs=13.4
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
-.+|.||.|||=-+.+..
T Consensus 35 ~l~G~nGsGKSTLl~~l~ 52 (255)
T PRK11300 35 SLIGPNGAGKTTVFNCLT 52 (255)
T ss_pred EEECCCCCCHHHHHHHHh
Confidence 368999999996555443
No 272
>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=22.86 E-value=38 Score=30.50 Aligned_cols=13 Identities=15% Similarity=0.299 Sum_probs=11.2
Q ss_pred eeccCCCceeece
Q psy3060 111 VGRSGREAEASPK 123 (268)
Q Consensus 111 VGRSGRGKsFtlt 123 (268)
.|-+|.||+||+.
T Consensus 88 yG~tgSGKTyTm~ 100 (333)
T cd01371 88 YGQTGTGKTFTME 100 (333)
T ss_pred cCCCCCCCcEeec
Confidence 4889999999974
No 273
>PRK13540 cytochrome c biogenesis protein CcmA; Provisional
Probab=22.85 E-value=33 Score=27.89 Aligned_cols=17 Identities=18% Similarity=0.120 Sum_probs=13.5
Q ss_pred eeeccCCCceeeceEee
Q psy3060 110 FVGRSGREAEASPKDWV 126 (268)
Q Consensus 110 FVGRSGRGKsFtlti~v 126 (268)
++|.||.|||=-+.+..
T Consensus 32 l~G~nGsGKSTLl~~i~ 48 (200)
T PRK13540 32 LKGSNGAGKTTLLKLIA 48 (200)
T ss_pred EECCCCCCHHHHHHHHh
Confidence 68999999997666554
No 274
>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=22.74 E-value=34 Score=29.08 Aligned_cols=10 Identities=20% Similarity=0.537 Sum_probs=9.3
Q ss_pred eeeccCCCce
Q psy3060 110 FVGRSGREAE 119 (268)
Q Consensus 110 FVGRSGRGKs 119 (268)
++|.+|.|||
T Consensus 27 i~G~NGsGKS 36 (247)
T cd03275 27 IIGPNGSGKS 36 (247)
T ss_pred EECCCCCCHH
Confidence 7899999997
No 275
>PRK11264 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional
Probab=22.72 E-value=33 Score=28.57 Aligned_cols=18 Identities=17% Similarity=0.228 Sum_probs=13.4
Q ss_pred eeeeeccCCCceeeceEe
Q psy3060 108 LRFVGRSGREAEASPKDW 125 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~ 125 (268)
+=.+|.||.|||=-+.+.
T Consensus 32 ~~i~G~nGsGKSTLl~~l 49 (250)
T PRK11264 32 VAIIGPSGSGKTTLLRCI 49 (250)
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 346899999999655544
No 276
>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.
Probab=22.70 E-value=30 Score=28.94 Aligned_cols=19 Identities=21% Similarity=0.293 Sum_probs=14.4
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+-.+|.||.|||=-+.+..
T Consensus 28 ~~l~G~nGsGKSTLl~~l~ 46 (177)
T cd03222 28 IGIVGPNGTGKTTAVKILA 46 (177)
T ss_pred EEEECCCCChHHHHHHHHH
Confidence 3478999999997666554
No 277
>PRK11831 putative ABC transporter ATP-binding protein YrbF; Provisional
Probab=22.68 E-value=33 Score=29.44 Aligned_cols=18 Identities=17% Similarity=0.051 Sum_probs=13.2
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
=.+|.||.|||=-|.+..
T Consensus 37 ~i~G~nGsGKSTLl~~l~ 54 (269)
T PRK11831 37 AIMGPSGIGKTTLLRLIG 54 (269)
T ss_pred EEECCCCCCHHHHHHHHh
Confidence 468999999996555443
No 278
>PTZ00132 GTP-binding nuclear protein Ran; Provisional
Probab=22.66 E-value=33 Score=27.82 Aligned_cols=15 Identities=27% Similarity=0.290 Sum_probs=12.2
Q ss_pred eeeeeccCCCceeec
Q psy3060 108 LRFVGRSGREAEASP 122 (268)
Q Consensus 108 LRFVGRSGRGKsFtl 122 (268)
+=++|.+|.|||=-+
T Consensus 12 v~liG~~g~GKTtLi 26 (215)
T PTZ00132 12 LILVGDGGVGKTTFV 26 (215)
T ss_pred EEEECCCCCCHHHHH
Confidence 568999999998544
No 279
>TIGR00958 3a01208 Conjugate Transporter-2 (CT2) Family protein.
Probab=22.63 E-value=33 Score=33.98 Aligned_cols=16 Identities=25% Similarity=0.405 Sum_probs=11.9
Q ss_pred eeeeeccCCCceeece
Q psy3060 108 LRFVGRSGREAEASPK 123 (268)
Q Consensus 108 LRFVGRSGRGKsFtlt 123 (268)
.=.||+||.|||=-+.
T Consensus 510 vaIvG~SGsGKSTLl~ 525 (711)
T TIGR00958 510 VALVGPSGSGKSTVAA 525 (711)
T ss_pred EEEECCCCCCHHHHHH
Confidence 3469999999994443
No 280
>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=22.63 E-value=40 Score=30.22 Aligned_cols=13 Identities=15% Similarity=0.199 Sum_probs=11.4
Q ss_pred eeccCCCceeece
Q psy3060 111 VGRSGREAEASPK 123 (268)
Q Consensus 111 VGRSGRGKsFtlt 123 (268)
.|-+|.||+||+-
T Consensus 87 yG~tgSGKTyTm~ 99 (319)
T cd01376 87 YGSTGAGKTHTML 99 (319)
T ss_pred ECCCCCCCcEEEe
Confidence 4999999999984
No 281
>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=22.54 E-value=27 Score=34.08 Aligned_cols=17 Identities=12% Similarity=0.049 Sum_probs=14.1
Q ss_pred eeeeeccCCCceeeceE
Q psy3060 108 LRFVGRSGREAEASPKD 124 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti 124 (268)
.=.+|.||.||||.+..
T Consensus 437 ~~I~G~tGsGKS~~~~~ 453 (785)
T TIGR00929 437 TLIFGPTGSGKTTLLNF 453 (785)
T ss_pred EEEECCCCCCHHHHHHH
Confidence 45789999999998854
No 282
>PRK07261 topology modulation protein; Provisional
Probab=22.51 E-value=35 Score=27.80 Aligned_cols=11 Identities=27% Similarity=0.483 Sum_probs=9.6
Q ss_pred eeeeccCCCce
Q psy3060 109 RFVGRSGREAE 119 (268)
Q Consensus 109 RFVGRSGRGKs 119 (268)
=.+|-||.|||
T Consensus 4 ~i~G~~GsGKS 14 (171)
T PRK07261 4 AIIGYSGSGKS 14 (171)
T ss_pred EEEcCCCCCHH
Confidence 36899999998
No 283
>cd05721 IgV_CTLA-4 Immunoglobulin (Ig) domain of cytotoxic T lymphocyte-associated antigen 4 (CTLA-4). IgV_CTLA-4: domain similar to the variable(v)-type immunoglobulin (Ig) domain found in cytotoxic T lymphocyte-associated antigen 4 (CTLA-4). CTLA-4 is involved in the regulation of T cell response, acting as an inhibitor of intracellular signalling. CTLA-4 is similar to CD28, a T cell co-receptor protein that recognizes the B7 proteins (CD80 and CD86). CD28 binding of the B7 proteins occurs after the presentation of antigen to the T cell receptor (TCR) via the peptide-MHC complex on the surface of an antigen presenting cell (APC). CTLA-4 also binds the B7 molecules with a higher affinity than does CD28. The B7/CTLA-4 interaction generates inhibitory signals down-regulating the response, and may prevent T cell activation by weak TCR signals. CD28 and CTLA-4 then elicit opposing signals in the regulation of T cell responsiveness and homeostasis. T cell activation leads to increased
Probab=22.46 E-value=4.5e+02 Score=21.75 Aligned_cols=76 Identities=14% Similarity=0.121 Sum_probs=53.7
Q ss_pred cCCCCcc-ccCCCceEEeecCcccccCCCCCcceEEEEeeecCCCeEEEEeecCCCccccccccceeeeccceeeeccee
Q psy3060 31 EHPGELT-RTGCPHVVCTVLPTHWRSNKTLPVAFKVVALGDVMDGTIVTIRAGNDENYCGELRNCTAVMKNQVAKFNDLR 109 (268)
Q Consensus 31 eh~geLV-~T~sP~~lCs~LP~HWRsNKtLP~aFkVvaLg~VpDGT~Vtv~AGNDEN~~AELRN~tAvMKNqVArFNDLR 109 (268)
+-.+.|| ..++=.+.|.. |..++...|+|=-+...|+|..|...-.|.+++.. ..| .||
T Consensus 4 ~~~~~lv~p~~sv~LsC~~------sg~~~s~e~~~~wvRq~pg~lE~c~~~~~~g~~~~-------~~~---~r~---- 63 (115)
T cd05721 4 QQSPVLASSNGAASLVCEY------TYNGFSKEFRASLLKGADSAVEVCAVTGNMSNQLQ-------TSL---DGF---- 63 (115)
T ss_pred ecCCeEEcCCCCEEEEEEe------cCCccccEEEEEEEEeCCCCcEEEEEEeCCCcccc-------ccC---CCe----
Confidence 3344444 45566899987 56677778999989999999888888888877221 112 122
Q ss_pred eeeccCCCceeeceEee
Q psy3060 110 FVGRSGREAEASPKDWV 126 (268)
Q Consensus 110 FVGRSGRGKsFtlti~v 126 (268)
...|.-...+++|+|+=
T Consensus 64 tcs~~~s~ntv~L~l~~ 80 (115)
T cd05721 64 NCDGTLGNEQVNFTLQN 80 (115)
T ss_pred EEeEeCCCCEEEEEEcC
Confidence 46777788889999984
No 284
>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.
Probab=22.45 E-value=35 Score=26.07 Aligned_cols=12 Identities=25% Similarity=0.376 Sum_probs=10.1
Q ss_pred eeeccCCCceee
Q psy3060 110 FVGRSGREAEAS 121 (268)
Q Consensus 110 FVGRSGRGKsFt 121 (268)
+.|-+|.|||-.
T Consensus 4 l~G~~GsGKST~ 15 (150)
T cd02021 4 VMGVSGSGKSTV 15 (150)
T ss_pred EEcCCCCCHHHH
Confidence 689999999854
No 285
>cd03248 ABCC_TAP TAP, the Transporter Associated with Antigen Processing; TAP is essential for peptide delivery from the cytosol into the lumen of the endoplasmic reticulum (ER), where these peptides are loaded on major histocompatibility complex (MHC) I molecules. Loaded MHC I leave the ER and display their antigenic cargo on the cell surface to cytotoxic T cells. Subsequently, virus-infected or malignantly transformed cells can be eliminated. TAP belongs to the large family of ATP-binding cassette (ABC) transporters, which translocate a vast variety of solutes across membranes.
Probab=22.37 E-value=34 Score=28.07 Aligned_cols=19 Identities=21% Similarity=0.136 Sum_probs=14.3
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+-.+|.||.|||=-+.+.-
T Consensus 43 ~~i~G~nGsGKSTLl~~l~ 61 (226)
T cd03248 43 TALVGPSGSGKSTVVALLE 61 (226)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 3468999999997666554
No 286
>PRK13649 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=22.33 E-value=34 Score=29.37 Aligned_cols=18 Identities=17% Similarity=0.272 Sum_probs=13.6
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
=.+|.||.|||=-|.+..
T Consensus 37 ~l~G~nGsGKSTLl~~i~ 54 (280)
T PRK13649 37 AFIGHTGSGKSTIMQLLN 54 (280)
T ss_pred EEECCCCCCHHHHHHHHh
Confidence 468999999996655543
No 287
>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional
Probab=22.33 E-value=34 Score=29.69 Aligned_cols=19 Identities=26% Similarity=0.281 Sum_probs=13.9
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+=.+|.||.|||=-|.+..
T Consensus 41 ~~I~G~NGsGKSTLlk~l~ 59 (257)
T PRK11247 41 VAVVGRSGCGKSTLLRLLA 59 (257)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 3468999999996555543
No 288
>PRK14252 phosphate ABC transporter ATP-binding protein; Provisional
Probab=22.33 E-value=34 Score=29.13 Aligned_cols=17 Identities=18% Similarity=0.284 Sum_probs=12.8
Q ss_pred eeeeccCCCceeeceEe
Q psy3060 109 RFVGRSGREAEASPKDW 125 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~ 125 (268)
=++|+||.|||=-|.+.
T Consensus 46 ~i~G~nGsGKSTLl~~l 62 (265)
T PRK14252 46 ALIGPSGCGKSTFLRCF 62 (265)
T ss_pred EEECCCCCCHHHHHHHH
Confidence 46899999999655444
No 289
>TIGR00972 3a0107s01c2 phosphate ABC transporter, ATP-binding protein. This model represents the ATP-binding protein of a family of ABC transporters for inorganic phosphate. In the model species Escherichia coli, a constitutive transporter for inorganic phosphate, with low affinity, is also present. The high affinity transporter that includes this polypeptide is induced when extracellular phosphate concentrations are low. The proteins most similar to the members of this family but not included appear to be amino acid transporters.
Probab=22.31 E-value=34 Score=28.64 Aligned_cols=20 Identities=15% Similarity=0.169 Sum_probs=14.7
Q ss_pred eeeeeccCCCceeeceEeee
Q psy3060 108 LRFVGRSGREAEASPKDWVG 127 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v~ 127 (268)
+-.+|.||.|||=-|.+..+
T Consensus 30 ~~i~G~nGsGKSTLl~~l~G 49 (247)
T TIGR00972 30 TALIGPSGCGKSTLLRSLNR 49 (247)
T ss_pred EEEECCCCCCHHHHHHHHhc
Confidence 34689999999976665543
No 290
>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=22.31 E-value=55 Score=27.36 Aligned_cols=14 Identities=29% Similarity=0.304 Sum_probs=11.5
Q ss_pred eeeeccCCCceeec
Q psy3060 109 RFVGRSGREAEASP 122 (268)
Q Consensus 109 RFVGRSGRGKsFtl 122 (268)
-|+|++|.|||--|
T Consensus 25 ~i~G~NGsGKStll 38 (198)
T cd03276 25 FIVGNNGSGKSAIL 38 (198)
T ss_pred EEECCCCCcHHHHH
Confidence 48999999998544
No 291
>cd01863 Rab18 Rab18 subfamily. Mammalian Rab18 is implicated in endocytic transport and is expressed most highly in polarized epithelial cells. However, trypanosomal Rab, TbRAB18, is upregulated in the BSF (Blood Stream Form) stage and localized predominantly to elements of the Golgi complex. In human and mouse cells, Rab18 has been identified in lipid droplets, organelles that store neutral lipids. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of mos
Probab=22.16 E-value=35 Score=25.45 Aligned_cols=12 Identities=25% Similarity=0.448 Sum_probs=10.0
Q ss_pred eeeeccCCCcee
Q psy3060 109 RFVGRSGREAEA 120 (268)
Q Consensus 109 RFVGRSGRGKsF 120 (268)
=++|.+|.|||=
T Consensus 4 ~v~G~~~~GKSs 15 (161)
T cd01863 4 LLIGDSGVGKSS 15 (161)
T ss_pred EEECCCCCCHHH
Confidence 378999999973
No 292
>PRK13633 cobalt transporter ATP-binding subunit; Provisional
Probab=22.09 E-value=35 Score=29.59 Aligned_cols=19 Identities=26% Similarity=0.386 Sum_probs=13.8
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+=++|.||.|||=-|.+..
T Consensus 39 ~~l~G~nGsGKSTLl~~l~ 57 (280)
T PRK13633 39 LVILGRNGSGKSTIAKHMN 57 (280)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 3478999999996555443
No 293
>PRK09984 phosphonate/organophosphate ester transporter subunit; Provisional
Probab=22.09 E-value=35 Score=28.96 Aligned_cols=20 Identities=20% Similarity=0.376 Sum_probs=14.4
Q ss_pred eeeeeccCCCceeeceEeee
Q psy3060 108 LRFVGRSGREAEASPKDWVG 127 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v~ 127 (268)
+=++|.||.|||=-+.+..+
T Consensus 33 ~~i~G~nGsGKSTLl~~i~G 52 (262)
T PRK09984 33 VALLGPSGSGKSTLLRHLSG 52 (262)
T ss_pred EEEECCCCCCHHHHHHHHhc
Confidence 34689999999965555443
No 294
>PF07887 Calmodulin_bind: Calmodulin binding protein-like; InterPro: IPR012416 The members of this family are putative or actual calmodulin binding proteins expressed by various plant species. Some members (for example, Q8H6T7 from SWISSPROT), are known to be involved in the induction of plant defence responses []. However, their precise function in this regard is as yet unknown.
Probab=22.08 E-value=93 Score=29.57 Aligned_cols=33 Identities=27% Similarity=0.328 Sum_probs=26.5
Q ss_pred eeeeccceeeecceeeeeccC--CCceeeceEeee
Q psy3060 95 TAVMKNQVAKFNDLRFVGRSG--REAEASPKDWVG 127 (268)
Q Consensus 95 tAvMKNqVArFNDLRFVGRSG--RGKsFtlti~v~ 127 (268)
.-.|+|.+|-..|+.|-.=|- |++.|.|-..|.
T Consensus 91 ~v~L~~G~a~l~di~FtdnSs~~rsrKFRLgarv~ 125 (299)
T PF07887_consen 91 QVTLKNGVATLGDISFTDNSSWIRSRKFRLGARVV 125 (299)
T ss_pred EEEecCCEEEccccEEecCcccccCCcEEEEEEEc
Confidence 557999999999999998772 334499998884
No 295
>PRK13636 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=22.06 E-value=35 Score=29.74 Aligned_cols=18 Identities=11% Similarity=0.189 Sum_probs=13.4
Q ss_pred eeeeeccCCCceeeceEe
Q psy3060 108 LRFVGRSGREAEASPKDW 125 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~ 125 (268)
+-++|+||.|||=-+.+.
T Consensus 35 ~~i~G~nGaGKSTLl~~i 52 (283)
T PRK13636 35 TAILGGNGAGKSTLFQNL 52 (283)
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 346899999999655544
No 296
>PRK13637 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=21.99 E-value=34 Score=29.91 Aligned_cols=18 Identities=11% Similarity=0.244 Sum_probs=13.7
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
=++|.||.|||=-+.+..
T Consensus 37 ~i~G~nGaGKSTLl~~l~ 54 (287)
T PRK13637 37 GLIGHTGSGKSTLIQHLN 54 (287)
T ss_pred EEECCCCCcHHHHHHHHh
Confidence 468999999997665543
No 297
>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional
Probab=21.98 E-value=35 Score=28.33 Aligned_cols=18 Identities=22% Similarity=0.062 Sum_probs=13.5
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
-.+|.||.|||=-|.+..
T Consensus 37 ~i~G~nGsGKSTLl~~l~ 54 (225)
T PRK10247 37 LITGPSGCGKSTLLKIVA 54 (225)
T ss_pred EEECCCCCCHHHHHHHHh
Confidence 468999999996665543
No 298
>cd04140 ARHI_like ARHI subfamily. ARHI (A Ras homolog member I) is a member of the Ras family with several unique structural and functional properties. ARHI is expressed in normal human ovarian and breast tissue, but its expression is decreased or eliminated in breast and ovarian cancer. ARHI contains an N-terminal extension of 34 residues (human) that is required to retain its tumor suppressive activity. Unlike most other Ras family members, ARHI is maintained in the constitutively active (GTP-bound) state in resting cells and has modest GTPase activity. ARHI inhibits STAT3 (signal transducers and activators of transcription 3), a latent transcription factor whose abnormal activation plays a critical role in oncogenesis. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to
Probab=21.94 E-value=35 Score=26.06 Aligned_cols=15 Identities=13% Similarity=0.162 Sum_probs=11.7
Q ss_pred eeeeeccCCCceeec
Q psy3060 108 LRFVGRSGREAEASP 122 (268)
Q Consensus 108 LRFVGRSGRGKsFtl 122 (268)
+=+||.+|.|||--+
T Consensus 4 v~~vG~~~vGKTsli 18 (165)
T cd04140 4 VVVFGAGGVGKSSLV 18 (165)
T ss_pred EEEECCCCCCHHHHH
Confidence 348999999998544
No 299
>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=21.93 E-value=42 Score=30.34 Aligned_cols=19 Identities=21% Similarity=0.385 Sum_probs=14.0
Q ss_pred ecceeee-eccCCCceeece
Q psy3060 105 FNDLRFV-GRSGREAEASPK 123 (268)
Q Consensus 105 FNDLRFV-GRSGRGKsFtlt 123 (268)
||-.=|. |-+|.||+|||.
T Consensus 81 ~n~~i~ayG~tgSGKTyTl~ 100 (352)
T cd01364 81 YNCTIFAYGQTGTGKTYTME 100 (352)
T ss_pred CeEEEEECCCCCCCCcEEec
Confidence 4444443 899999999984
No 300
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=21.90 E-value=26 Score=26.74 Aligned_cols=19 Identities=21% Similarity=0.347 Sum_probs=12.5
Q ss_pred cceeeeeccCCCceeeceE
Q psy3060 106 NDLRFVGRSGREAEASPKD 124 (268)
Q Consensus 106 NDLRFVGRSGRGKsFtlti 124 (268)
+=+=++|-+|.|||.-|.-
T Consensus 25 ~~~ll~G~~G~GKT~ll~~ 43 (185)
T PF13191_consen 25 RNLLLTGESGSGKTSLLRA 43 (185)
T ss_dssp --EEE-B-TTSSHHHHHHH
T ss_pred cEEEEECCCCCCHHHHHHH
Confidence 4466789999999988764
No 301
>cd01895 EngA2 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.
Probab=21.88 E-value=37 Score=24.89 Aligned_cols=14 Identities=14% Similarity=0.235 Sum_probs=11.0
Q ss_pred eeeeccCCCceeec
Q psy3060 109 RFVGRSGREAEASP 122 (268)
Q Consensus 109 RFVGRSGRGKsFtl 122 (268)
=++|.+|.|||=-+
T Consensus 6 ~i~G~~~~GKstli 19 (174)
T cd01895 6 AIIGRPNVGKSSLV 19 (174)
T ss_pred EEEcCCCCCHHHHH
Confidence 47899999998433
No 302
>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional
Probab=21.84 E-value=35 Score=29.23 Aligned_cols=17 Identities=18% Similarity=0.044 Sum_probs=12.8
Q ss_pred eeeeccCCCceeeceEe
Q psy3060 109 RFVGRSGREAEASPKDW 125 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~ 125 (268)
=.+|.||.|||=-|.+.
T Consensus 31 ~i~G~nGsGKSTLl~~l 47 (255)
T PRK11248 31 VVLGPSGCGKTTLLNLI 47 (255)
T ss_pred EEECCCCCCHHHHHHHH
Confidence 46899999999655544
No 303
>cd03299 ABC_ModC_like Archeal protein closely related to ModC. 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=21.84 E-value=36 Score=28.51 Aligned_cols=17 Identities=12% Similarity=0.169 Sum_probs=13.3
Q ss_pred eeeeccCCCceeeceEe
Q psy3060 109 RFVGRSGREAEASPKDW 125 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~ 125 (268)
-++|+||.|||=-+.+.
T Consensus 29 ~i~G~nG~GKStLl~~l 45 (235)
T cd03299 29 VILGPTGSGKSVLLETI 45 (235)
T ss_pred EEECCCCCCHHHHHHHH
Confidence 47899999998666554
No 304
>COG1123 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]
Probab=21.78 E-value=33 Score=34.69 Aligned_cols=19 Identities=26% Similarity=0.340 Sum_probs=14.7
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
|=.||.||+|||-+.-...
T Consensus 38 lgIvGESGsGKSt~a~~i~ 56 (539)
T COG1123 38 LGIVGESGSGKSTLALALM 56 (539)
T ss_pred EEEEcCCCCCHHHHHHHHh
Confidence 4579999999997765544
No 305
>PRK14256 phosphate ABC transporter ATP-binding protein; Provisional
Probab=21.73 E-value=36 Score=28.62 Aligned_cols=18 Identities=17% Similarity=0.228 Sum_probs=13.1
Q ss_pred eeeeeccCCCceeeceEe
Q psy3060 108 LRFVGRSGREAEASPKDW 125 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~ 125 (268)
+-.+|.||.|||==|.+.
T Consensus 33 ~~i~G~nGsGKSTLl~~l 50 (252)
T PRK14256 33 TAIIGPSGCGKSTVLRSI 50 (252)
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 447899999998544444
No 306
>TIGR01288 nodI ATP-binding ABC transporter family nodulation protein NodI. This model does not recognize the highly divergent NodI from Azorhizobium caulinodans.
Probab=21.65 E-value=36 Score=29.93 Aligned_cols=19 Identities=11% Similarity=0.288 Sum_probs=14.1
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+=++|.||.|||=.|.+..
T Consensus 33 ~~l~G~NGaGKSTLl~~l~ 51 (303)
T TIGR01288 33 FGLLGPNGAGKSTIARMLL 51 (303)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 3468999999996665543
No 307
>cd04157 Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a subfamily of the Arf family of small GTPases. Arl6 expression is limited to the brain and kidney in adult mice, but it is expressed in the neural plate and somites during embryogenesis, suggesting a possible role for Arl6 in early development. Arl6 is also believed to have a role in cilia or flagella function. Several proteins have been identified that bind Arl6, including Arl6 interacting protein (Arl6ip), and SEC61beta, a subunit of the heterotrimeric conducting channel SEC61p. Based on Arl6 binding to these effectors, Arl6 is also proposed to play a role in protein transport, membrane trafficking, or cell signaling during hematopoietic maturation. At least three specific homozygous Arl6 mutations in humans have been found to cause Bardet-Biedl syndrome, a disorder characterized by obesity, retinopathy, polydactyly, renal and cardiac malformations, learning disabilities, and hypogenitalism. Older literature suggests that A
Probab=21.61 E-value=38 Score=25.13 Aligned_cols=13 Identities=15% Similarity=0.102 Sum_probs=10.6
Q ss_pred eeeeccCCCceee
Q psy3060 109 RFVGRSGREAEAS 121 (268)
Q Consensus 109 RFVGRSGRGKsFt 121 (268)
=++|.+|.|||=-
T Consensus 3 ~~vG~~~~GKTsl 15 (162)
T cd04157 3 LVVGLDNSGKTTI 15 (162)
T ss_pred EEECCCCCCHHHH
Confidence 4799999999743
No 308
>cd01878 HflX HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.
Probab=21.61 E-value=36 Score=27.09 Aligned_cols=13 Identities=15% Similarity=0.317 Sum_probs=11.0
Q ss_pred eeeeeccCCCcee
Q psy3060 108 LRFVGRSGREAEA 120 (268)
Q Consensus 108 LRFVGRSGRGKsF 120 (268)
.-++|++|.|||=
T Consensus 44 I~iiG~~g~GKSt 56 (204)
T cd01878 44 VALVGYTNAGKST 56 (204)
T ss_pred EEEECCCCCCHHH
Confidence 4688999999983
No 309
>PRK14244 phosphate ABC transporter ATP-binding protein; Provisional
Probab=21.59 E-value=36 Score=28.56 Aligned_cols=16 Identities=25% Similarity=0.418 Sum_probs=12.3
Q ss_pred eeeccCCCceeeceEe
Q psy3060 110 FVGRSGREAEASPKDW 125 (268)
Q Consensus 110 FVGRSGRGKsFtlti~ 125 (268)
.+|.||.|||=-+.+.
T Consensus 36 I~G~nGsGKSTLl~~i 51 (251)
T PRK14244 36 FIGPSGCGKSTFLRCF 51 (251)
T ss_pred EECCCCCCHHHHHHHH
Confidence 6899999999655543
No 310
>PRK14268 phosphate ABC transporter ATP-binding protein; Provisional
Probab=21.50 E-value=36 Score=28.85 Aligned_cols=19 Identities=16% Similarity=0.118 Sum_probs=14.2
Q ss_pred eeeeccCCCceeeceEeee
Q psy3060 109 RFVGRSGREAEASPKDWVG 127 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v~ 127 (268)
=.+|.||.|||=-|.+..+
T Consensus 42 ~i~G~nGsGKSTLl~~i~G 60 (258)
T PRK14268 42 ALIGPSGCGKSTFIRCLNR 60 (258)
T ss_pred EEECCCCCCHHHHHHHHhc
Confidence 3689999999966655543
No 311
>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters. PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. 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=21.49 E-value=37 Score=27.96 Aligned_cols=21 Identities=19% Similarity=0.242 Sum_probs=15.8
Q ss_pred eeeeccCCCceeeceEeeeee
Q psy3060 109 RFVGRSGREAEASPKDWVGTL 129 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v~t~ 129 (268)
=.+|.||.|||=-|.+..+.+
T Consensus 37 ~i~G~nGsGKSTLl~~l~G~~ 57 (202)
T cd03233 37 LVLGRPGSGCSTLLKALANRT 57 (202)
T ss_pred EEECCCCCCHHHHHHHhcccC
Confidence 468999999997776665543
No 312
>TIGR03771 anch_rpt_ABC anchored repeat-type ABC transporter, ATP-binding subunit. This protein family is the ATP-binding cassette subunit of binding protein-dependent ABC transporter complex that strictly co-occurs with TIGR03769. TIGRFAMs model TIGR03769 describes a protein domain that occurs singly or as one of up to three repeats in proteins of a number of Actinobacteria, including Propionibacterium acnes KPA171202. The TIGR03769 domain occurs both in an adjacent gene for the substrate-binding protein and in additional (often nearby) proteins, often with LPXTG-like sortase recognition signals. Homologous ATP-binding subunits outside the scope of this family include manganese transporter MntA in Synechocystis sp. PCC 6803 and chelated iron transporter subunits. The function of this transporter complex is unknown.
Probab=21.48 E-value=36 Score=28.33 Aligned_cols=17 Identities=12% Similarity=0.216 Sum_probs=12.7
Q ss_pred eeeeccCCCceeeceEe
Q psy3060 109 RFVGRSGREAEASPKDW 125 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~ 125 (268)
-.+|.||.|||=-+.+.
T Consensus 10 ~l~G~nGsGKSTLl~~l 26 (223)
T TIGR03771 10 GLLGPNGAGKTTLLRAI 26 (223)
T ss_pred EEECCCCCCHHHHHHHH
Confidence 46899999999555444
No 313
>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=21.47 E-value=38 Score=26.19 Aligned_cols=12 Identities=8% Similarity=0.191 Sum_probs=10.5
Q ss_pred eeeeeccCCCce
Q psy3060 108 LRFVGRSGREAE 119 (268)
Q Consensus 108 LRFVGRSGRGKs 119 (268)
+=++|.+|.|||
T Consensus 17 v~ivG~~~~GKT 28 (173)
T cd04154 17 ILILGLDNAGKT 28 (173)
T ss_pred EEEECCCCCCHH
Confidence 458999999998
No 314
>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt
Probab=21.43 E-value=37 Score=27.17 Aligned_cols=19 Identities=21% Similarity=0.232 Sum_probs=14.3
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+-++|.||.|||=-+.+.-
T Consensus 30 ~~i~G~nGsGKSTLl~~l~ 48 (166)
T cd03223 30 LLITGPSGTGKSSLFRALA 48 (166)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 4578999999996665543
No 315
>PRK15079 oligopeptide ABC transporter ATP-binding protein OppF; Provisional
Probab=21.35 E-value=36 Score=30.93 Aligned_cols=19 Identities=26% Similarity=0.368 Sum_probs=14.7
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+=++|.||.|||=-+.+..
T Consensus 50 ~~lvG~sGsGKSTLlk~i~ 68 (331)
T PRK15079 50 LGVVGESGCGKSTFARAII 68 (331)
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 4478999999997766554
No 316
>PRK14265 phosphate ABC transporter ATP-binding protein; Provisional
Probab=21.21 E-value=37 Score=29.41 Aligned_cols=19 Identities=21% Similarity=0.364 Sum_probs=14.6
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+-.+|+||.|||=-|.+..
T Consensus 49 ~~IiG~nGsGKSTLl~~l~ 67 (274)
T PRK14265 49 IAFIGPSGCGKSTLLRCFN 67 (274)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 4579999999996665544
No 317
>cd03295 ABC_OpuCA_Osmoprotection OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. 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, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition, to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=21.18 E-value=38 Score=28.32 Aligned_cols=18 Identities=22% Similarity=0.224 Sum_probs=13.2
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
=.+|.||.|||=-|.+..
T Consensus 31 ~i~G~nGsGKSTLl~~l~ 48 (242)
T cd03295 31 VLIGPSGSGKTTTMKMIN 48 (242)
T ss_pred EEECCCCCCHHHHHHHHh
Confidence 358999999996555443
No 318
>cd03244 ABCC_MRP_domain2 Domain 2 of the ABC subfamily C. This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminus, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resistance lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.
Probab=21.05 E-value=38 Score=27.62 Aligned_cols=18 Identities=22% Similarity=0.285 Sum_probs=13.1
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
=.+|.||.|||=-+.+..
T Consensus 34 ~i~G~nGsGKSTLl~~l~ 51 (221)
T cd03244 34 GIVGRTGSGKSSLLLALF 51 (221)
T ss_pred EEECCCCCCHHHHHHHHH
Confidence 357999999996555443
No 319
>PRK11308 dppF dipeptide transporter ATP-binding subunit; Provisional
Probab=21.03 E-value=37 Score=30.76 Aligned_cols=19 Identities=26% Similarity=0.288 Sum_probs=13.9
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+=.||.||.|||=-+.+..
T Consensus 44 ~~IvG~sGsGKSTLl~~l~ 62 (327)
T PRK11308 44 LAVVGESGCGKSTLARLLT 62 (327)
T ss_pred EEEECCCCCcHHHHHHHHH
Confidence 3468999999996665543
No 320
>PRK09544 znuC high-affinity zinc transporter ATPase; Reviewed
Probab=20.96 E-value=38 Score=29.15 Aligned_cols=19 Identities=16% Similarity=0.263 Sum_probs=14.1
Q ss_pred eeeeeccCCCceeeceEee
Q psy3060 108 LRFVGRSGREAEASPKDWV 126 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v 126 (268)
+-.+|+||.|||=-+.+..
T Consensus 33 ~~I~G~NGsGKSTLl~~i~ 51 (251)
T PRK09544 33 LTLLGPNGAGKSTLVRVVL 51 (251)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 3468999999996665544
No 321
>TIGR02982 heterocyst_DevA ABC exporter ATP-binding subunit, DevA family. Members of this protein family are found mostly in the Cyanobacteria, but also in the Planctomycetes. Cyanobacterial examples are involved in heterocyst formation, by which some fraction of members of the colony undergo a developmental change and become capable of nitrogen fixation. The DevBCA proteins are thought export of either heterocyst-specific glycolipids or an enzyme essential for formation of the laminated layer found in heterocysts.
Probab=20.94 E-value=38 Score=27.85 Aligned_cols=18 Identities=17% Similarity=-0.001 Sum_probs=13.0
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
=.+|.||.|||=-+.+..
T Consensus 35 ~I~G~nGsGKStLl~~l~ 52 (220)
T TIGR02982 35 ILTGPSGSGKTTLLTLIG 52 (220)
T ss_pred EEECCCCCCHHHHHHHHh
Confidence 468999999995554443
No 322
>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=20.94 E-value=39 Score=30.22 Aligned_cols=13 Identities=23% Similarity=0.225 Sum_probs=10.2
Q ss_pred eeeccCCCceeec
Q psy3060 110 FVGRSGREAEASP 122 (268)
Q Consensus 110 FVGRSGRGKsFtl 122 (268)
+.|.||+|||==+
T Consensus 26 vtGvSGsGKStL~ 38 (261)
T cd03271 26 VTGVSGSGKSSLI 38 (261)
T ss_pred EECCCCCchHHHH
Confidence 4699999998433
No 323
>cd04125 RabA_like RabA-like subfamily. RabA was first identified in D. discoideum, where its expression levels were compared to other Rabs in growing and developing cells. The RabA mRNA levels were below the level of detection by Northern blot analysis, suggesting a very low level of expression. The function of RabA remains unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.
Probab=20.89 E-value=38 Score=26.61 Aligned_cols=11 Identities=18% Similarity=0.308 Sum_probs=9.5
Q ss_pred eeeeccCCCce
Q psy3060 109 RFVGRSGREAE 119 (268)
Q Consensus 109 RFVGRSGRGKs 119 (268)
=|+|.+|.|||
T Consensus 4 ~v~G~~~vGKS 14 (188)
T cd04125 4 VIIGDYGVGKS 14 (188)
T ss_pred EEECCCCCCHH
Confidence 48999999994
No 324
>PRK14272 phosphate ABC transporter ATP-binding protein; Provisional
Probab=20.88 E-value=38 Score=28.25 Aligned_cols=19 Identities=16% Similarity=0.149 Sum_probs=14.4
Q ss_pred eeeeccCCCceeeceEeee
Q psy3060 109 RFVGRSGREAEASPKDWVG 127 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v~ 127 (268)
=.+|.||.|||=-|.+..+
T Consensus 34 ~i~G~nGsGKSTLl~~i~G 52 (252)
T PRK14272 34 ALIGPSGCGKTTFLRAINR 52 (252)
T ss_pred EEECCCCCCHHHHHHHHhc
Confidence 4789999999966655544
No 325
>PRK15134 microcin C ABC transporter ATP-binding protein YejF; Provisional
Probab=20.77 E-value=37 Score=32.03 Aligned_cols=20 Identities=25% Similarity=0.380 Sum_probs=14.0
Q ss_pred eeeeeccCCCceeeceEeee
Q psy3060 108 LRFVGRSGREAEASPKDWVG 127 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v~ 127 (268)
+=.+|+||.|||=-|.+..+
T Consensus 38 ~~iiG~nGsGKSTLl~~i~G 57 (529)
T PRK15134 38 LALVGESGSGKSVTALSILR 57 (529)
T ss_pred EEEECCCCCcHHHHHHHHhc
Confidence 34689999999865444443
No 326
>cd04118 Rab24 Rab24 subfamily. Rab24 is distinct from other Rabs in several ways. It exists primarily in the GTP-bound state, having a low intrinsic GTPase activity; it is not efficiently geranyl-geranylated at the C-terminus; it does not form a detectable complex with Rab GDP-dissociation inhibitors (GDIs); and it has recently been shown to undergo tyrosine phosphorylation when overexpressed in vitro. The specific function of Rab24 still remains unknown. It is found in a transport route between ER-cis-Golgi and late endocytic compartments. It is putatively involved in an autophagic pathway, possibly directing misfolded proteins in the ER to degradative pathways. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilita
Probab=20.74 E-value=39 Score=26.49 Aligned_cols=11 Identities=9% Similarity=0.244 Sum_probs=10.0
Q ss_pred eeeeccCCCce
Q psy3060 109 RFVGRSGREAE 119 (268)
Q Consensus 109 RFVGRSGRGKs 119 (268)
=++|.+|.|||
T Consensus 4 ~vvG~~~vGKS 14 (193)
T cd04118 4 VMLGKESVGKT 14 (193)
T ss_pred EEECCCCCCHH
Confidence 47999999998
No 327
>cd01897 NOG NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans. NOG1 is functionally linked to ribosome biogenesis and found in association with the nuclear pore complexes and identified in many preribosomal complexes. Thus, defects in NOG1 can lead to defects in 60S biogenesis. The S. cerevisiae NOG1 gene is essential for cell viability, and mutations in the predicted G motifs abrogate function. It is a member of the ODN family of GTP-binding proteins that also includes the bacterial Obg and DRG proteins.
Probab=20.73 E-value=46 Score=25.03 Aligned_cols=12 Identities=17% Similarity=0.160 Sum_probs=10.0
Q ss_pred eeeeeccCCCce
Q psy3060 108 LRFVGRSGREAE 119 (268)
Q Consensus 108 LRFVGRSGRGKs 119 (268)
+-++|++|.|||
T Consensus 3 i~~~G~~~~GKs 14 (168)
T cd01897 3 LVIAGYPNVGKS 14 (168)
T ss_pred EEEEcCCCCCHH
Confidence 347899999997
No 328
>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=20.72 E-value=45 Score=29.74 Aligned_cols=22 Identities=14% Similarity=0.264 Sum_probs=14.7
Q ss_pred eeeecceee-eeccCCCceeece
Q psy3060 102 VAKFNDLRF-VGRSGREAEASPK 123 (268)
Q Consensus 102 VArFNDLRF-VGRSGRGKsFtlt 123 (268)
++=||=.=| .|-+|.||+||+.
T Consensus 70 l~G~n~~i~ayG~tgSGKT~T~~ 92 (321)
T cd01374 70 LEGYNGTIFAYGQTSSGKTFTMS 92 (321)
T ss_pred HCCCceeEEeecCCCCCCceecc
Confidence 334443333 3889999999985
No 329
>TIGR03740 galliderm_ABC gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit. Model TIGR03731 represents the family of all lantibiotics related to gallidermin, including epidermin, mutatin, and nisin. This protein family describes the ATP-binding subunit of a gallidermin/epidermin class lantibiotic protection transporter. It is largely restricted to gallidermin-family lantibiotic biosynthesis and export cassettes, but also occurs in orphan transporter cassettes in species that lack candidate lantibiotic precursor and synthetase genes.
Probab=20.70 E-value=39 Score=27.78 Aligned_cols=17 Identities=18% Similarity=0.178 Sum_probs=12.8
Q ss_pred eeeeccCCCceeeceEe
Q psy3060 109 RFVGRSGREAEASPKDW 125 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~ 125 (268)
=.+|.||.|||=-|.+.
T Consensus 30 ~i~G~nGsGKSTLl~~l 46 (223)
T TIGR03740 30 GLLGPNGAGKSTLLKMI 46 (223)
T ss_pred EEECCCCCCHHHHHHHH
Confidence 46899999999655544
No 330
>TIGR02314 ABC_MetN D-methionine ABC transporter, ATP-binding protein. Members of this family are the ATP-binding protein of the D-methionine ABC transporter complex. Known members belong to the Proteobacteria.
Probab=20.68 E-value=38 Score=31.24 Aligned_cols=18 Identities=17% Similarity=0.154 Sum_probs=13.6
Q ss_pred eeeeeccCCCceeeceEe
Q psy3060 108 LRFVGRSGREAEASPKDW 125 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~ 125 (268)
+-++|.||.|||=-|.+.
T Consensus 34 ~gIiG~sGaGKSTLlr~I 51 (343)
T TIGR02314 34 YGVIGASGAGKSTLIRCV 51 (343)
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 457999999998655443
No 331
>PRK15056 manganese/iron transporter ATP-binding protein; Provisional
Probab=20.68 E-value=39 Score=29.10 Aligned_cols=17 Identities=24% Similarity=0.249 Sum_probs=12.5
Q ss_pred eeeeccCCCceeeceEe
Q psy3060 109 RFVGRSGREAEASPKDW 125 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~ 125 (268)
-.+|.||.|||=-|.+.
T Consensus 37 ~l~G~nGsGKSTLl~~l 53 (272)
T PRK15056 37 ALVGVNGSGKSTLFKAL 53 (272)
T ss_pred EEECCCCCCHHHHHHHH
Confidence 36899999999554443
No 332
>PRK13650 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=20.66 E-value=39 Score=29.38 Aligned_cols=18 Identities=11% Similarity=0.219 Sum_probs=13.8
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
=.+|.||.|||=-+.+..
T Consensus 37 ~i~G~nGsGKSTLl~~l~ 54 (279)
T PRK13650 37 SIIGHNGSGKSTTVRLID 54 (279)
T ss_pred EEECCCCCCHHHHHHHHh
Confidence 468999999997665543
No 333
>PRK14237 phosphate transporter ATP-binding protein; Provisional
Probab=20.61 E-value=39 Score=29.00 Aligned_cols=20 Identities=15% Similarity=0.205 Sum_probs=14.1
Q ss_pred eeeeeccCCCceeeceEeee
Q psy3060 108 LRFVGRSGREAEASPKDWVG 127 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~v~ 127 (268)
+=.+|.||.|||=-|.+..+
T Consensus 49 ~~I~G~nGsGKSTLl~~l~G 68 (267)
T PRK14237 49 TALIGPSGSGKSTYLRSLNR 68 (267)
T ss_pred EEEECCCCCCHHHHHHHHHh
Confidence 34689999999965554443
No 334
>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]
Probab=20.59 E-value=38 Score=33.64 Aligned_cols=18 Identities=28% Similarity=0.309 Sum_probs=15.0
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
=.|||+|+|||=-|.|.-
T Consensus 33 GLvG~NGaGKSTLLkila 50 (530)
T COG0488 33 GLVGRNGAGKSTLLKILA 50 (530)
T ss_pred EEECCCCCCHHHHHHHHc
Confidence 469999999998777765
No 335
>cd04136 Rap_like Rap-like subfamily. The Rap subfamily consists of the Rap1, Rap2, and RSR1. Rap subfamily proteins perform different cellular functions, depending on the isoform and its subcellular localization. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and microsomal membrane of the pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. Rap1 localizes in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres.
Probab=20.57 E-value=40 Score=24.99 Aligned_cols=12 Identities=25% Similarity=0.354 Sum_probs=10.2
Q ss_pred eeeeccCCCcee
Q psy3060 109 RFVGRSGREAEA 120 (268)
Q Consensus 109 RFVGRSGRGKsF 120 (268)
=++|.+|.||+=
T Consensus 5 ~i~G~~~vGKTs 16 (163)
T cd04136 5 VVLGSGGVGKSA 16 (163)
T ss_pred EEECCCCCCHHH
Confidence 479999999983
No 336
>PRK14235 phosphate transporter ATP-binding protein; Provisional
Probab=20.45 E-value=39 Score=28.96 Aligned_cols=19 Identities=21% Similarity=0.211 Sum_probs=14.2
Q ss_pred eeeeccCCCceeeceEeee
Q psy3060 109 RFVGRSGREAEASPKDWVG 127 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v~ 127 (268)
-.+|.||.|||=-|.+..+
T Consensus 49 ~i~G~nGsGKSTLl~~l~G 67 (267)
T PRK14235 49 AFIGPSGCGKSTFLRCLNR 67 (267)
T ss_pred EEECCCCCCHHHHHHHHHh
Confidence 4689999999966655543
No 337
>cd04151 Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes to the Golgi complex, where it is believed to recruit effector proteins to the trans-Golgi network. Like most members of the Arf family, Arl1 is myristoylated at its N-terminal helix and mutation of the myristoylation site disrupts Golgi targeting. In humans, the Golgi-localized proteins golgin-97 and golgin-245 have been identified as Arl1 effectors. Golgins are large coiled-coil proteins found in the Golgi, and these golgins contain a C-terminal GRIP domain, which is the site of Arl1 binding. Additional Arl1 effectors include the GARP (Golgi-associated retrograde protein)/VFT (Vps53) vesicle-tethering complex and Arfaptin 2. Arl1 is not required for exocytosis, but appears necessary for trafficking from the endosomes to the Golgi. In Drosophila zygotes, mutation of Arl1 is lethal, and in the host-bloodstream form of Trypanosoma brucei, Arl1 is essential for viability.
Probab=20.43 E-value=41 Score=25.40 Aligned_cols=11 Identities=9% Similarity=0.123 Sum_probs=9.6
Q ss_pred eeeeccCCCce
Q psy3060 109 RFVGRSGREAE 119 (268)
Q Consensus 109 RFVGRSGRGKs 119 (268)
=++|.+|.|||
T Consensus 3 ~lvG~~~~GKT 13 (158)
T cd04151 3 LILGLDNAGKT 13 (158)
T ss_pred EEECCCCCCHH
Confidence 47999999995
No 338
>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=20.40 E-value=48 Score=30.13 Aligned_cols=13 Identities=15% Similarity=0.243 Sum_probs=11.4
Q ss_pred eeccCCCceeece
Q psy3060 111 VGRSGREAEASPK 123 (268)
Q Consensus 111 VGRSGRGKsFtlt 123 (268)
.|-+|.||+|||.
T Consensus 95 yGqtGSGKT~Tm~ 107 (356)
T cd01365 95 YGQTGSGKSYTMM 107 (356)
T ss_pred ecCCCCCCeEEec
Confidence 4889999999984
No 339
>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.
Probab=20.36 E-value=40 Score=27.31 Aligned_cols=16 Identities=25% Similarity=0.364 Sum_probs=12.2
Q ss_pred eeeccCCCceeeceEe
Q psy3060 110 FVGRSGREAEASPKDW 125 (268)
Q Consensus 110 FVGRSGRGKsFtlti~ 125 (268)
.+|.||.|||=-|.+.
T Consensus 31 i~G~nGsGKSTLl~~l 46 (208)
T cd03268 31 FLGPNGAGKTTTMKII 46 (208)
T ss_pred EECCCCCCHHHHHHHH
Confidence 5799999999655444
No 340
>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor. The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI's are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity of more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.
Probab=20.35 E-value=40 Score=29.11 Aligned_cols=18 Identities=17% Similarity=0.115 Sum_probs=13.8
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
=++|.||.|||=-|.+..
T Consensus 29 ~i~G~NGsGKSTLlk~L~ 46 (246)
T cd03237 29 GILGPNGIGKTTFIKMLA 46 (246)
T ss_pred EEECCCCCCHHHHHHHHh
Confidence 468999999996666543
No 341
>PRK14259 phosphate ABC transporter ATP-binding protein; Provisional
Probab=20.28 E-value=40 Score=29.06 Aligned_cols=18 Identities=17% Similarity=0.250 Sum_probs=13.5
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
=.+|.||.|||=-|.+..
T Consensus 43 ~l~G~nGsGKSTLl~~l~ 60 (269)
T PRK14259 43 ALIGPSGCGKSTVLRSLN 60 (269)
T ss_pred EEECCCCCCHHHHHHHHh
Confidence 468999999996555543
No 342
>PRK14266 phosphate ABC transporter ATP-binding protein; Provisional
Probab=20.26 E-value=40 Score=28.18 Aligned_cols=17 Identities=18% Similarity=0.257 Sum_probs=12.6
Q ss_pred eeeeccCCCceeeceEe
Q psy3060 109 RFVGRSGREAEASPKDW 125 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~ 125 (268)
-.+|+||.|||=-+.+.
T Consensus 33 ~i~G~nGsGKSTLl~~l 49 (250)
T PRK14266 33 ALIGPSGCGKSTFIRTL 49 (250)
T ss_pred EEECCCCCCHHHHHHHH
Confidence 46899999998555443
No 343
>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN. Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.
Probab=20.20 E-value=41 Score=26.54 Aligned_cols=14 Identities=29% Similarity=0.373 Sum_probs=11.2
Q ss_pred eeeccCCCceeece
Q psy3060 110 FVGRSGREAEASPK 123 (268)
Q Consensus 110 FVGRSGRGKsFtlt 123 (268)
++|-||.|||=.+.
T Consensus 6 i~G~sGsGKttl~~ 19 (179)
T TIGR02322 6 VVGPSGAGKDTLLD 19 (179)
T ss_pred EECCCCCCHHHHHH
Confidence 68999999985553
No 344
>cd04101 RabL4 RabL4 (Rab-like4) subfamily. RabL4s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL4 lacks a prenylation site at the C-terminus. The specific function of RabL4 remains unknown.
Probab=20.11 E-value=47 Score=24.86 Aligned_cols=15 Identities=20% Similarity=0.071 Sum_probs=12.0
Q ss_pred eeeeeccCCCceeec
Q psy3060 108 LRFVGRSGREAEASP 122 (268)
Q Consensus 108 LRFVGRSGRGKsFtl 122 (268)
+-++|.+|.|||--+
T Consensus 3 i~vvG~~~~GKtsl~ 17 (164)
T cd04101 3 CAVVGDPAVGKTAFV 17 (164)
T ss_pred EEEECCCCCCHHHHH
Confidence 458999999998544
No 345
>PRK10789 putative multidrug transporter membrane\ATP-binding components; Provisional
Probab=20.10 E-value=40 Score=32.23 Aligned_cols=18 Identities=17% Similarity=0.134 Sum_probs=13.0
Q ss_pred eeeeeccCCCceeeceEe
Q psy3060 108 LRFVGRSGREAEASPKDW 125 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~ 125 (268)
.=+||.||.|||=-+.+.
T Consensus 344 ~~ivG~sGsGKSTLl~ll 361 (569)
T PRK10789 344 LGICGPTGSGKSTLLSLI 361 (569)
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 347999999999544433
No 346
>PRK13643 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=20.04 E-value=39 Score=29.58 Aligned_cols=18 Identities=11% Similarity=0.274 Sum_probs=12.9
Q ss_pred eeeeeccCCCceeeceEe
Q psy3060 108 LRFVGRSGREAEASPKDW 125 (268)
Q Consensus 108 LRFVGRSGRGKsFtlti~ 125 (268)
+=++|.||.|||=-+.+.
T Consensus 35 v~i~G~nGsGKSTLl~~l 52 (288)
T PRK13643 35 TALIGHTGSGKSTLLQHL 52 (288)
T ss_pred EEEECCCCChHHHHHHHH
Confidence 345899999999555443
No 347
>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein. This model describes the energy-transducing ATPase subunit ThiQ of the ThiBPQ thiamine (and thiamine pyrophosphate) ABC transporter in several Proteobacteria. This protein is found so far only in Proteobacteria, and is found in complete genomes only if the ThiB and ThiP subunits are also found.
Probab=20.03 E-value=41 Score=27.54 Aligned_cols=16 Identities=19% Similarity=0.287 Sum_probs=11.7
Q ss_pred eeeeeccCCCceeece
Q psy3060 108 LRFVGRSGREAEASPK 123 (268)
Q Consensus 108 LRFVGRSGRGKsFtlt 123 (268)
+-.+|.||.|||==+.
T Consensus 27 ~~i~G~nGsGKSTLl~ 42 (213)
T TIGR01277 27 VAIMGPSGAGKSTLLN 42 (213)
T ss_pred EEEECCCCCCHHHHHH
Confidence 3468999999984443
No 348
>cd01850 CDC_Septin CDC/Septin. Septins are a conserved family of GTP-binding proteins associated with diverse processes in dividing and non-dividing cells. They were first discovered in the budding yeast S. cerevisiae as a set of genes (CDC3, CDC10, CDC11 and CDC12) required for normal bud morphology. Septins are also present in metazoan cells, where they are required for cytokinesis in some systems, and implicated in a variety of other processes involving organization of the cell cortex and exocytosis. In humans, 12 septin genes generate dozens of polypeptides, many of which comprise heterooligomeric complexes. Since septin mutants are commonly defective in cytokinesis and formation of the neck formation of the neck filaments/septin rings, septins have been considered to be the primary constituents of the neck filaments. Septins belong to the GTPase superfamily for their conserved GTPase motifs and enzymatic activities.
Probab=20.03 E-value=41 Score=29.80 Aligned_cols=12 Identities=33% Similarity=0.479 Sum_probs=10.0
Q ss_pred eeeeeccCCCce
Q psy3060 108 LRFVGRSGREAE 119 (268)
Q Consensus 108 LRFVGRSGRGKs 119 (268)
+=.||+||.|||
T Consensus 7 I~vvG~sg~GKS 18 (276)
T cd01850 7 IMVVGESGLGKS 18 (276)
T ss_pred EEEEcCCCCCHH
Confidence 447899999996
No 349
>PRK11153 metN DL-methionine transporter ATP-binding subunit; Provisional
Probab=20.02 E-value=40 Score=30.58 Aligned_cols=18 Identities=17% Similarity=0.128 Sum_probs=13.5
Q ss_pred eeeeccCCCceeeceEee
Q psy3060 109 RFVGRSGREAEASPKDWV 126 (268)
Q Consensus 109 RFVGRSGRGKsFtlti~v 126 (268)
=.+|.||.|||=-|.+..
T Consensus 35 ~iiG~nGsGKSTLlk~L~ 52 (343)
T PRK11153 35 GVIGASGAGKSTLIRCIN 52 (343)
T ss_pred EEECCCCCcHHHHHHHHh
Confidence 468999999996655443
Done!