Query psy9229
Match_columns 258
No_of_seqs 109 out of 153
Neff 2.7
Searched_HMMs 46136
Date Fri Aug 16 22:11:36 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy9229.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/9229hhsearch_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 3E-87 6.4E-92 553.9 10.6 135 74-208 1-135 (135)
2 KOG3982|consensus 100.0 2.8E-81 6E-86 589.0 12.7 140 70-209 94-234 (475)
3 PF00853 Runt: Runt domain; I 99.8 5.9E-21 1.3E-25 159.2 6.6 108 130-245 15-134 (135)
4 KOG3982|consensus 99.7 6.4E-18 1.4E-22 161.0 6.0 109 130-246 112-233 (475)
5 PF04028 DUF374: Domain of unk 58.2 6.4 0.00014 30.1 1.6 14 191-204 61-74 (74)
6 cd01858 NGP_1 NGP-1. Autoanti 55.9 7.9 0.00017 30.9 1.8 11 162-172 107-117 (157)
7 PRK10738 hypothetical protein; 53.0 15 0.00033 30.2 3.1 82 150-232 1-107 (134)
8 cd04159 Arl10_like Arl10-like 51.9 7.2 0.00016 29.0 0.9 14 159-172 1-14 (159)
9 COG0432 Uncharacterized conser 42.6 30 0.00066 29.9 3.4 32 173-204 99-130 (137)
10 TIGR03729 acc_ester putative p 41.5 26 0.00056 30.2 2.9 42 126-167 61-110 (239)
11 cd01856 YlqF YlqF. Proteins o 40.7 17 0.00038 29.6 1.6 44 128-172 78-130 (171)
12 cd03279 ABC_sbcCD SbcCD and ot 39.1 14 0.0003 31.4 0.8 15 161-175 32-46 (213)
13 TIGR02788 VirB11 P-type DNA tr 38.7 67 0.0014 29.4 5.2 112 77-205 42-186 (308)
14 PF10442 FIST_C: FIST C domain 37.7 39 0.00084 26.4 3.1 33 118-150 51-83 (136)
15 cd01876 YihA_EngB The YihA (En 37.6 16 0.00034 27.4 0.8 16 159-174 1-16 (170)
16 cd01852 AIG1 AIG1 (avrRpt2-ind 34.4 19 0.00041 29.8 0.9 14 160-173 3-16 (196)
17 TIGR00149 TIGR00149_YbjQ secon 33.7 37 0.00081 28.5 2.6 28 174-201 95-122 (132)
18 PF13555 AAA_29: P-loop contai 33.6 22 0.00047 26.5 1.1 24 149-172 11-38 (62)
19 PF01894 UPF0047: Uncharacteri 32.8 23 0.00049 29.2 1.1 29 173-201 82-110 (118)
20 PF00005 ABC_tran: ABC transpo 32.6 20 0.00043 27.4 0.7 16 160-175 14-29 (137)
21 PRK14238 phosphate transporter 32.5 30 0.00064 30.6 1.9 51 127-178 4-71 (271)
22 PF12846 AAA_10: AAA-like doma 32.4 12 0.00026 31.5 -0.6 15 161-175 5-19 (304)
23 COG3638 ABC-type phosphate/pho 30.0 25 0.00055 33.2 1.1 15 161-175 34-48 (258)
24 PF01926 MMR_HSR1: 50S ribosom 29.9 20 0.00043 26.9 0.3 12 160-171 2-13 (116)
25 cd03277 ABC_SMC5_euk Eukaryoti 29.7 29 0.00062 30.1 1.3 32 143-175 8-41 (213)
26 PF05356 Phage_Coat_B: Phage C 29.4 18 0.00039 29.1 0.0 13 149-161 3-15 (83)
27 COG1116 TauB ABC-type nitrate/ 29.2 12 0.00025 34.9 -1.2 46 160-211 32-79 (248)
28 cd00820 PEPCK_HprK Phosphoenol 29.1 23 0.0005 28.7 0.6 18 160-177 18-35 (107)
29 cd03273 ABC_SMC2_euk Eukaryoti 29.0 22 0.00048 30.8 0.5 15 161-175 29-43 (251)
30 PF13304 AAA_21: AAA domain; P 28.7 19 0.00041 27.7 0.0 14 162-175 4-17 (303)
31 PF02575 YbaB_DNA_bd: YbaB/Ebf 28.7 19 0.00041 27.1 0.0 26 144-169 5-30 (93)
32 cd01898 Obg Obg subfamily. Th 28.6 25 0.00055 27.1 0.7 13 159-171 2-14 (170)
33 cd01859 MJ1464 MJ1464. This f 28.4 36 0.00077 26.9 1.5 44 128-172 73-116 (156)
34 PRK13159 cytochrome c-type bio 28.2 71 0.0015 28.0 3.4 32 110-141 92-129 (155)
35 KOG1068|consensus 27.8 36 0.00078 31.9 1.7 37 171-207 25-64 (245)
36 cd04114 Rab30 Rab30 subfamily. 27.7 30 0.00065 26.8 1.0 15 158-172 8-22 (169)
37 cd03272 ABC_SMC3_euk Eukaryoti 27.0 26 0.00057 29.7 0.6 12 161-172 27-38 (243)
38 cd01881 Obg_like The Obg-like 26.9 21 0.00044 27.6 -0.1 10 162-171 1-10 (176)
39 COG1132 MdlB ABC-type multidru 26.8 24 0.00052 34.3 0.4 10 162-171 360-369 (567)
40 smart00175 RAB Rab subfamily o 26.7 25 0.00054 26.8 0.3 14 160-173 3-16 (164)
41 COG2274 SunT ABC-type bacterio 26.3 26 0.00056 36.6 0.5 26 160-185 502-527 (709)
42 PF03193 DUF258: Protein of un 25.7 25 0.00054 30.4 0.2 30 135-172 21-50 (161)
43 cd01853 Toc34_like Toc34-like 24.9 27 0.00058 31.4 0.3 14 160-173 34-47 (249)
44 cd01918 HprK_C HprK/P, the bif 23.8 30 0.00066 29.5 0.4 12 160-171 17-28 (149)
45 TIGR02695 azurin azurin. Azuri 23.4 36 0.00078 29.0 0.8 13 94-107 106-118 (125)
46 PF00988 CPSase_sm_chain: Carb 23.3 17 0.00038 30.9 -1.2 24 100-123 85-111 (131)
47 COG1124 DppF ABC-type dipeptid 23.1 24 0.00052 33.2 -0.4 49 155-209 31-79 (252)
48 cd04155 Arl3 Arl3 subfamily. 22.9 35 0.00075 26.7 0.5 13 160-172 17-29 (173)
49 PRK12289 GTPase RsgA; Reviewed 22.9 65 0.0014 30.7 2.4 36 128-172 152-187 (352)
50 cd03274 ABC_SMC4_euk Eukaryoti 22.8 35 0.00077 29.4 0.6 16 160-175 28-43 (212)
51 cd04104 p47_IIGP_like p47 (47- 22.7 33 0.00071 28.7 0.4 12 160-171 4-15 (197)
52 TIGR02868 CydC thiol reductant 22.5 32 0.0007 32.9 0.4 28 159-186 363-390 (529)
53 COG1126 GlnQ ABC-type polar am 22.3 41 0.00089 31.5 1.0 38 155-198 26-63 (240)
54 cd03263 ABC_subfamily_A The AB 22.3 34 0.00073 28.6 0.4 27 160-186 31-57 (220)
55 TIGR00157 ribosome small subun 22.3 35 0.00076 30.3 0.5 35 129-172 101-135 (245)
56 cd03278 ABC_SMC_barmotin Barmo 21.9 36 0.00078 29.0 0.5 15 161-175 26-40 (197)
57 TIGR03263 guanyl_kin guanylate 21.8 35 0.00076 27.4 0.4 13 160-172 4-16 (180)
58 TIGR00296 uncharacterized prot 21.5 50 0.0011 29.5 1.3 58 124-185 43-113 (200)
59 cd03225 ABC_cobalt_CbiO_domain 21.5 36 0.00078 28.3 0.4 27 160-186 30-56 (211)
60 KOG0951|consensus 21.5 70 0.0015 36.9 2.6 81 90-173 1080-1175(1674)
61 TIGR01166 cbiO cobalt transpor 21.4 36 0.00078 28.0 0.4 26 160-185 21-46 (190)
62 cd04119 RJL RJL (RabJ-Like) su 21.3 36 0.00079 25.8 0.3 12 160-171 3-14 (168)
63 cd03224 ABC_TM1139_LivF_branch 21.3 36 0.00079 28.4 0.4 27 160-186 29-55 (222)
64 PF14564 Membrane_bind: Membra 21.0 93 0.002 25.5 2.7 24 159-182 3-27 (110)
65 cd04160 Arfrp1 Arfrp1 subfamil 21.0 47 0.001 25.6 0.9 13 160-172 2-14 (167)
66 PF12568 DUF3749: Acetyltransf 20.9 51 0.0011 28.1 1.2 10 154-164 42-51 (128)
67 PF13207 AAA_17: AAA domain; P 20.8 37 0.00081 25.3 0.3 11 162-172 4-14 (121)
68 PF02463 SMC_N: RecF/RecN/SMC 20.7 48 0.001 27.7 1.0 31 142-172 6-39 (220)
69 PRK13150 cytochrome c-type bio 20.7 1.2E+02 0.0026 26.7 3.4 35 110-144 98-140 (159)
70 PF01935 DUF87: Domain of unkn 20.6 27 0.00058 29.5 -0.6 15 161-175 27-41 (229)
71 cd03235 ABC_Metallic_Cations A 20.6 38 0.00082 28.3 0.3 25 160-184 28-52 (213)
72 cd03264 ABC_drug_resistance_li 20.6 38 0.00083 28.2 0.3 25 160-184 28-52 (211)
73 cd04164 trmE TrmE (MnmE, ThdF, 20.6 41 0.00088 25.2 0.5 12 160-171 4-15 (157)
74 COG1135 AbcC ABC-type metal io 20.5 38 0.00083 33.2 0.4 15 161-175 36-50 (339)
75 cd03261 ABC_Org_Solvent_Resist 20.5 39 0.00084 28.7 0.4 27 160-186 29-55 (235)
76 cd03292 ABC_FtsE_transporter F 20.4 39 0.00085 28.0 0.4 34 160-199 30-63 (214)
77 PRK14257 phosphate ABC transpo 20.3 39 0.00084 31.4 0.4 17 160-176 111-127 (329)
78 cd04123 Rab21 Rab21 subfamily. 20.3 46 0.001 25.1 0.7 13 160-172 3-15 (162)
79 cd04139 RalA_RalB RalA/RalB su 20.2 46 0.001 25.2 0.7 12 160-171 3-14 (164)
80 PF09547 Spore_IV_A: Stage IV 20.2 67 0.0015 32.9 2.0 64 33-97 10-76 (492)
81 TIGR02673 FtsE cell division A 20.1 40 0.00086 28.1 0.4 27 160-186 31-57 (214)
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=3e-87 Score=553.88 Aligned_cols=135 Identities=81% Similarity=1.270 Sum_probs=116.9
Q ss_pred hhhhhhhhhcCCCceeecCCCceEeecCCCccccCCCCCcceEEEEeeecCCCeEEEEeccCCCccceeccchhhhhccc
Q psy9229 74 ERTLGDFLSEHPGELVRTGSPQFVCTVLPPHWRSNKTLPVAFKVVALGDVMDGTIVTIRAGNDENYCAELRNCTAVMKNQ 153 (258)
Q Consensus 74 e~~~~~~l~~~~~elv~T~sP~~lcs~LP~HWR~NKtLP~~FkVvalg~v~DGt~Vtv~AGNdEn~~aeLRN~~a~mknq 153 (258)
||+|.|+|+|||||||+||||||+||+||+||||||+||++|||||||||||||+|||||||||||||||||++|+||||
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 ceeecceeeeecCCCCCcceEEEEEecCCCeeeeeeeeEEEeeeCCCCCCCCCCc
Q psy9229 154 VAKFNDLRFVGRSGRGKSFTLTITISSSPPQVTTYSKAIKVTVDGPREPRSKTRK 208 (258)
Q Consensus 154 vA~FnDLRFvGRSGRGKsftltItv~t~PPqvAt~~~AIKVtvDGPRepRs~r~K 208 (258)
|||||||||||||||||||+|||+|+|+|||||||++|||||||||||||++++|
T Consensus 81 vA~FnDLRFvGRSGRGKsFtltItv~t~PpqvAty~~AIKVTVDGPRePR~~~~~ 135 (135)
T PF00853_consen 81 VARFNDLRFVGRSGRGKSFTLTITVFTNPPQVATYHRAIKVTVDGPREPRSKRQK 135 (135)
T ss_dssp EEEESS-EECST-TTTSEEEEEEEE-SSS-EEEEECCEEEEESS-SSCCG-----
T ss_pred cccccccccccccCCccceEEEEEEeCCCchHHhheeeEEEEecCCCCCccccCC
Confidence 9999999999999999999999999999999999999999999999999999876
No 2
>KOG3982|consensus
Probab=100.00 E-value=2.8e-81 Score=589.01 Aligned_cols=140 Identities=82% Similarity=1.243 Sum_probs=135.9
Q ss_pred hhhhhhhhhhhhhcCCCceeecCCCceEeecCCCccccCCCCCcceEEEEeeecCCCeEEEEeccCCCccceeccchhhh
Q psy9229 70 DILAERTLGDFLSEHPGELVRTGSPQFVCTVLPPHWRSNKTLPVAFKVVALGDVMDGTIVTIRAGNDENYCAELRNCTAV 149 (258)
Q Consensus 70 ~~~~e~~~~~~l~~~~~elv~T~sP~~lcs~LP~HWR~NKtLP~~FkVvalg~v~DGt~Vtv~AGNdEn~~aeLRN~~a~ 149 (258)
+.+.+|+|+|+|+|||||||+||||||||++||+|||||||||+||||||||||||||+||||||||||||+|||||+|+
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 45799999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hcccceeecceeeeecCCCCCcceEEEEEecCCCeeeeeeeeEEEeeeCCCCCC-CCCCcc
Q psy9229 150 MKNQVAKFNDLRFVGRSGRGKSFTLTITISSSPPQVTTYSKAIKVTVDGPREPR-SKTRKS 209 (258)
Q Consensus 150 mknqvA~FnDLRFvGRSGRGKsftltItv~t~PPqvAt~~~AIKVtvDGPRepR-s~r~KS 209 (258)
|||||||||||||||||||||+|||||+|+|+|||||||+|||||||||||||| +|-+++
T Consensus 174 mknQVAkFNDLRFVGRSGRGKsFtLTIti~TnP~qvATy~kaIKVTVDGPRepRr~K~~~~ 234 (475)
T KOG3982|consen 174 MKNQVAKFNDLRFVGRSGRGKSFTLTITIFTNPPQVATYHKAIKVTVDGPREPRRSKLSDQ 234 (475)
T ss_pred HHhhhhhhccceeecccCCCcceEEEEEEecCCcceeeeeceEEEeccCCCcccccccccc
Confidence 999999999999999999999999999999999999999999999999999999 555555
No 3
>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=99.83 E-value=5.9e-21 Score=159.23 Aligned_cols=108 Identities=39% Similarity=0.494 Sum_probs=85.5
Q ss_pred EEeccCCCccceeccchhhhhcccceeecceeeeecCCCCCcceEE------------EEEecCCCeeeeeeeeEEEeee
Q psy9229 130 TIRAGNDENYCAELRNCTAVMKNQVAKFNDLRFVGRSGRGKSFTLT------------ITISSSPPQVTTYSKAIKVTVD 197 (258)
Q Consensus 130 tv~AGNdEn~~aeLRN~~a~mknqvA~FnDLRFvGRSGRGKsftlt------------Itv~t~PPqvAt~~~AIKVtvD 197 (258)
.|..|+..-.|.-|..+|...|...+.|.- -.+|.-..|...||. .....+..|+|.|++..+|
T Consensus 15 lv~T~sP~~lcs~LP~HWR~NKsLP~~FkV-valg~V~DGT~Vtv~AGNDEn~~aElRN~tavmknqvA~FnDLRFv--- 90 (135)
T PF00853_consen 15 LVRTDSPNFLCSVLPSHWRSNKSLPVAFKV-VALGDVPDGTLVTVMAGNDENYCAELRNATAVMKNQVARFNDLRFV--- 90 (135)
T ss_dssp EEECSSTTEEEES-TSEEETTSS-SS-EEE-EESSS-STTEEEEEEEEESSCSSBBEES-EEEEETTEEEESS-EEC---
T ss_pred cccCCCCCEEeecccccccccCCCCCceeE-EEEEEcCCCcEEEEEecCCchhhhhhhchhhhhhcccccccccccc---
Confidence 468899999999999999999999999975 566889999887776 3444556899999999999
Q ss_pred CCCCCCCCCCcceeeEEEeecCCCceeeeccceeeeeeCCCCCCCCCc
Q psy9229 198 GPREPRSKTRKSFTLTITISSSPPQVTTYSKAIKVTVDGPREPRSKTI 245 (258)
Q Consensus 198 GPRepRs~r~KSf~lTItisTSPPqvat~~~AIKVtVDGPRePR~k~~ 245 (258)
+||||||||+++|++.|+||||+||++|||||||||||||++..
T Consensus 91 ----GRSGRGKsFtltItv~t~PpqvAty~~AIKVTVDGPRePR~~~~ 134 (135)
T PF00853_consen 91 ----GRSGRGKSFTLTITVFTNPPQVATYHRAIKVTVDGPREPRSKRQ 134 (135)
T ss_dssp ----ST-TTTSEEEEEEEE-SSS-EEEEECCEEEEESS-SSCCG----
T ss_pred ----cccCCccceEEEEEEeCCCchHHhheeeEEEEecCCCCCccccC
Confidence 99999999999999999999999999999999999999999864
No 4
>KOG3982|consensus
Probab=99.71 E-value=6.4e-18 Score=160.97 Aligned_cols=109 Identities=40% Similarity=0.478 Sum_probs=96.6
Q ss_pred EEeccCCCccceeccchhhhhcccceeecceeeeecCCCCCcceEE------------EEEecCCCeeeeeeeeEEEeee
Q psy9229 130 TIRAGNDENYCAELRNCTAVMKNQVAKFNDLRFVGRSGRGKSFTLT------------ITISSSPPQVTTYSKAIKVTVD 197 (258)
Q Consensus 130 tv~AGNdEn~~aeLRN~~a~mknqvA~FnDLRFvGRSGRGKsftlt------------Itv~t~PPqvAt~~~AIKVtvD 197 (258)
.|+.+...-.|..|.++|...|..-..|+. ..+|..=.|.-.++. .+-.....|||.|++..+|
T Consensus 112 LvrT~SPn~lcs~LP~HWRsNKtlp~aFkV-vaLgdVpDgT~Vti~aGNDEnyc~ElRN~tA~mknQVAkFNDLRFV--- 187 (475)
T KOG3982|consen 112 LVRTSSPNFLCSVLPTHWRSNKTLPVAFKV-VALGDVPDGTLVTIMAGNDENYCAELRNCTAVMKNQVAKFNDLRFV--- 187 (475)
T ss_pred eeecCCCceeeecCcchhccCCcccceeEE-EEecccCCCcEEEEEecCCcchhHHhhhhHHHHHhhhhhhccceee---
Confidence 468899999999999999999999999997 577877788777665 3444556899999999999
Q ss_pred CCCCCCCCCCcceeeEEEeecCCCceeeeccceeeeeeCCCCCC-CCCcc
Q psy9229 198 GPREPRSKTRKSFTLTITISSSPPQVTTYSKAIKVTVDGPREPR-SKTIL 246 (258)
Q Consensus 198 GPRepRs~r~KSf~lTItisTSPPqvat~~~AIKVtVDGPRePR-~k~~~ 246 (258)
+||||||+|+|+|+|.|.|+||+||++||||||||||||| +|..-
T Consensus 188 ----GRSGRGKsFtLTIti~TnP~qvATy~kaIKVTVDGPRepRr~K~~~ 233 (475)
T KOG3982|consen 188 ----GRSGRGKSFTLTITIFTNPPQVATYHKAIKVTVDGPREPRRSKLSD 233 (475)
T ss_pred ----cccCCCcceEEEEEEecCCcceeeeeceEEEeccCCCccccccccc
Confidence 9999999999999999999999999999999999999999 55543
No 5
>PF04028 DUF374: Domain of unknown function (DUF374); InterPro: IPR007172 This is a bacterial domain of unknown function.
Probab=58.24 E-value=6.4 Score=30.11 Aligned_cols=14 Identities=57% Similarity=1.032 Sum_probs=11.1
Q ss_pred eEEEeeeCCCCCCC
Q psy9229 191 AIKVTVDGPREPRS 204 (258)
Q Consensus 191 AIKVtvDGPRepRs 204 (258)
-+=+|.||||-||+
T Consensus 61 ~~~itpDGPrGP~r 74 (74)
T PF04028_consen 61 SIAITPDGPRGPRR 74 (74)
T ss_pred eEEEeCCCCCCCCC
Confidence 34579999999984
No 6
>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=55.90 E-value=7.9 Score=30.95 Aligned_cols=11 Identities=45% Similarity=0.694 Sum_probs=10.1
Q ss_pred eeecCCCCCcc
Q psy9229 162 FVGRSGRGKSF 172 (258)
Q Consensus 162 FvGRSGRGKsf 172 (258)
|+|++|.|||=
T Consensus 107 ~~G~~nvGKSt 117 (157)
T cd01858 107 FIGYPNVGKSS 117 (157)
T ss_pred EEeCCCCChHH
Confidence 99999999984
No 7
>PRK10738 hypothetical protein; Provisional
Probab=53.03 E-value=15 Score=30.23 Aligned_cols=82 Identities=16% Similarity=0.281 Sum_probs=45.9
Q ss_pred hcccceeecceeeeecCCCCCcceEEEE---EecCCCee-----eee---------------eeeEEEeeeCCCCCCCCC
Q psy9229 150 MKNQVAKFNDLRFVGRSGRGKSFTLTIT---ISSSPPQV-----TTY---------------SKAIKVTVDGPREPRSKT 206 (258)
Q Consensus 150 mknqvA~FnDLRFvGRSGRGKsftltIt---v~t~PPqv-----At~---------------~~AIKVtvDGPRepRs~r 206 (258)
||-.+..-.|++|+|++.+|..+.+--- -.-+|.++ +.. -+.|.|.|+|-|..-..+
T Consensus 1 m~~~~~w~~~~~f~~~~~~g~~i~~D~~G~~~g~~P~EllL~aLg~Ct~i~v~~~l~k~~~~~~~~~v~v~~~r~~~~p~ 80 (134)
T PRK10738 1 MQARVKWVEGLTFLGESASGHQILMDGNSGDKAPSPMEMVLMAAGGCSAIDVVSILQKGRQDVVDCEVKLTSERREEAPR 80 (134)
T ss_pred CEEEEEEeCCcEEEEEcCCCCEEEEcCCCCCCCCCHHHHHHHHHcCchHHHHHHHHHHCCCCcccEEEEEEEEEcccCCC
Confidence 3444444568999999999987665421 01122121 110 167889999987643333
Q ss_pred C-cceeeEEEeecC-CCceeeeccceee
Q psy9229 207 R-KSFTLTITISSS-PPQVTTYSKAIKV 232 (258)
Q Consensus 207 ~-KSf~lTItisTS-PPqvat~~~AIKV 232 (258)
. ..+.+++.+..+ -++ ....|++..
T Consensus 81 ~f~~I~~~~~~~g~~l~~-e~~~rav~l 107 (134)
T PRK10738 81 LFTHINLHFIVTGKDLKD-AAVARAVDL 107 (134)
T ss_pred cccEEEEEEEEECCCCCH-HHHHHHHHH
Confidence 2 457777777542 333 445555543
No 8
>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=51.85 E-value=7.2 Score=28.97 Aligned_cols=14 Identities=29% Similarity=0.586 Sum_probs=11.9
Q ss_pred ceeeeecCCCCCcc
Q psy9229 159 DLRFVGRSGRGKSF 172 (258)
Q Consensus 159 DLRFvGRSGRGKsf 172 (258)
|+-++|++|.|||=
T Consensus 1 ~i~i~G~~~~GKss 14 (159)
T cd04159 1 EITLVGLQNSGKTT 14 (159)
T ss_pred CEEEEcCCCCCHHH
Confidence 56799999999974
No 9
>COG0432 Uncharacterized conserved protein [Function unknown]
Probab=42.57 E-value=30 Score=29.85 Aligned_cols=32 Identities=31% Similarity=0.475 Sum_probs=28.8
Q ss_pred eEEEEEecCCCeeeeeeeeEEEeeeCCCCCCC
Q psy9229 173 TLTITISSSPPQVTTYSKAIKVTVDGPREPRS 204 (258)
Q Consensus 173 tltItv~t~PPqvAt~~~AIKVtvDGPRepRs 204 (258)
.++|=|.-..+.+.||+.-+.+-.||||..|+
T Consensus 99 S~~iPv~~GrL~LGTWQ~I~~~E~dg~r~~R~ 130 (137)
T COG0432 99 SLTIPVINGRLVLGTWQGIFLVEFDGPRHRRR 130 (137)
T ss_pred eEEEEEeCCeEceecccEEEEEEecCCCCccE
Confidence 47888888999999999999999999998775
No 10
>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=41.49 E-value=26 Score=30.20 Aligned_cols=42 Identities=26% Similarity=0.488 Sum_probs=26.9
Q ss_pred CeEEEEeccCCCcc----ceeccch--hhhhcccceee--cceeeeecCC
Q psy9229 126 GTIVTIRAGNDENY----CAELRNC--TAVMKNQVAKF--NDLRFVGRSG 167 (258)
Q Consensus 126 Gt~Vtv~AGNdEn~----~aeLRN~--~a~mknqvA~F--nDLRFvGRSG 167 (258)
+..|.+-.||-|.+ ..+++.. .-.+.+....| +++||+|=.|
T Consensus 61 ~~pv~~v~GNHD~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~ig~~g 110 (239)
T TIGR03729 61 GIKVTFNAGNHDMLKDLTYEEIESNDSPLYLHNRFIDIPNTQWRIIGNNG 110 (239)
T ss_pred CCcEEEECCCCCCCCCCCHHHHHhccchhhhcccccccCCCceEEEeecc
Confidence 35677889999976 2224431 11355566677 8999999654
No 11
>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=40.67 E-value=17 Score=29.57 Aligned_cols=44 Identities=16% Similarity=0.171 Sum_probs=26.1
Q ss_pred EEEEeccCCCccceeccchhhhhc-----ccceeec----ceeeeecCCCCCcc
Q psy9229 128 IVTIRAGNDENYCAELRNCTAVMK-----NQVAKFN----DLRFVGRSGRGKSF 172 (258)
Q Consensus 128 ~Vtv~AGNdEn~~aeLRN~~a~mk-----nqvA~Fn----DLRFvGRSGRGKsf 172 (258)
.+.|.|-++++ ..||++....+- +.-+++. .+.++|++|.|||=
T Consensus 78 vi~iSa~~~~g-i~~L~~~l~~~l~~~~~~~~~~~~~~~~~~~~~G~~~vGKst 130 (171)
T cd01856 78 VLFVNAKSGKG-VKKLLKAAKKLLKDIEKLKAKGLLPRGIRAMVVGIPNVGKST 130 (171)
T ss_pred EEEEECCCccc-HHHHHHHHHHHHHHHhhhhhcccCCCCeEEEEECCCCCCHHH
Confidence 46677777665 455665544331 1111111 37899999999974
No 12
>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=39.12 E-value=14 Score=31.41 Aligned_cols=15 Identities=40% Similarity=0.561 Sum_probs=12.0
Q ss_pred eeeecCCCCCcceEE
Q psy9229 161 RFVGRSGRGKSFTLT 175 (258)
Q Consensus 161 RFvGRSGRGKsftlt 175 (258)
-++|.+|.|||=.|.
T Consensus 32 ~i~G~NGsGKSTll~ 46 (213)
T cd03279 32 LICGPTGAGKSTILD 46 (213)
T ss_pred EEECCCCCCHHHHHH
Confidence 489999999986544
No 13
>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=38.69 E-value=67 Score=29.35 Aligned_cols=112 Identities=19% Similarity=0.258 Sum_probs=63.6
Q ss_pred hhhhhhcCCCceeecCCCceEeecCCCccccCCCCCcceEEEEeee--cCCCe-EEEEeccCCCcccee-----------
Q psy9229 77 LGDFLSEHPGELVRTGSPQFVCTVLPPHWRSNKTLPVAFKVVALGD--VMDGT-IVTIRAGNDENYCAE----------- 142 (258)
Q Consensus 77 ~~~~l~~~~~elv~T~sP~~lcs~LP~HWR~NKtLP~~FkVvalg~--v~DGt-~Vtv~AGNdEn~~ae----------- 142 (258)
+.+.|+...+.-+-.++|.+-|. || ...+|-+.++ .+.|+ .++|+--+..+++-+
T Consensus 42 ~~~~l~~~~~~~l~~~~p~~~~~-l~----------~g~Rv~~~~~p~~~~~~~~i~IRk~~~~~~sl~~l~~~g~~~~~ 110 (308)
T TIGR02788 42 LARAIASFSKQSISEENPILSAT-LP----------GGERVQIVIPPACENDTVSITIRKPSLVDFSLDDYEEKGFFDTV 110 (308)
T ss_pred HHHHHHHHhCCcccCCCceEEEE-CC----------CCeEEEEECCCcccCCCceEEEECCCCCCCCHHHHHHcCCcccc
Confidence 34444555565566788988887 34 3456766653 45566 888988776655422
Q ss_pred -------------ccc------hhhhhcccceeecceeeeecCCCCCcceEEEEEecCCCeeeeeeeeEEEeeeCCCCCC
Q psy9229 143 -------------LRN------CTAVMKNQVAKFNDLRFVGRSGRGKSFTLTITISSSPPQVTTYSKAIKVTVDGPREPR 203 (258)
Q Consensus 143 -------------LRN------~~a~mknqvA~FnDLRFvGRSGRGKsftltItv~t~PPqvAt~~~AIKVtvDGPRepR 203 (258)
|.. ....++..+..=.-+=++|.+|.||+=.+...+.--||.- .-|+++-++|-.
T Consensus 111 ~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~v~~~~~ili~G~tGsGKTTll~al~~~~~~~~------~iv~ied~~El~ 184 (308)
T TIGR02788 111 RAQSGTLSDNDEQLLELLDAGDIKEFLRLAIASRKNIIISGGTGSGKTTFLKSLVDEIPKDE------RIITIEDTREIF 184 (308)
T ss_pred cccccccchhhHHHHHhhhhHHHHHHHHHHhhCCCEEEEECCCCCCHHHHHHHHHccCCccc------cEEEEcCccccC
Confidence 110 0111222232334567999999999976654444445432 134667677754
Q ss_pred CC
Q psy9229 204 SK 205 (258)
Q Consensus 204 s~ 205 (258)
-.
T Consensus 185 ~~ 186 (308)
T TIGR02788 185 LP 186 (308)
T ss_pred CC
Confidence 43
No 14
>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=37.72 E-value=39 Score=26.43 Aligned_cols=33 Identities=21% Similarity=0.311 Sum_probs=27.8
Q ss_pred EEeeecCCCeEEEEeccCCCccceeccchhhhh
Q psy9229 118 VALGDVMDGTIVTIRAGNDENYCAELRNCTAVM 150 (258)
Q Consensus 118 valg~v~DGt~Vtv~AGNdEn~~aeLRN~~a~m 150 (258)
.-.++|+.|+.|.+|-+|.+.....++.....+
T Consensus 51 ~~~~~v~eG~~v~l~~~~~~~~~~~~~~~~~~~ 83 (136)
T PF10442_consen 51 TFAGDVPEGSEVQLMEGDPEDIIESAEEALEKA 83 (136)
T ss_pred EEeeecCCCCEEEEEcCCHHHHHHHHHHHHHhh
Confidence 445799999999999999988888887776666
No 15
>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=37.63 E-value=16 Score=27.37 Aligned_cols=16 Identities=44% Similarity=0.721 Sum_probs=12.7
Q ss_pred ceeeeecCCCCCcceE
Q psy9229 159 DLRFVGRSGRGKSFTL 174 (258)
Q Consensus 159 DLRFvGRSGRGKsftl 174 (258)
|+-++|.+|.||+--+
T Consensus 1 ~i~l~G~~g~GKTtL~ 16 (170)
T cd01876 1 EIAFAGRSNVGKSSLI 16 (170)
T ss_pred CEEEEcCCCCCHHHHH
Confidence 5678999999998533
No 16
>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=34.40 E-value=19 Score=29.84 Aligned_cols=14 Identities=57% Similarity=0.866 Sum_probs=11.5
Q ss_pred eeeeecCCCCCcce
Q psy9229 160 LRFVGRSGRGKSFT 173 (258)
Q Consensus 160 LRFvGRSGRGKsft 173 (258)
+-+|||+|.|||=.
T Consensus 3 i~lvG~~g~GKSsl 16 (196)
T cd01852 3 LVLVGKTGAGKSAT 16 (196)
T ss_pred EEEECCCCCCHHHH
Confidence 45899999999853
No 17
>TIGR00149 TIGR00149_YbjQ secondary thiamine-phosphate synthase enzyme. Members of this protein family have been studied extensively by crystallography. Members from several different species have been shown to have sufficient thiamin phosphate synthase activity (EC 2.5.1.3) to complement thiE mutants. However, it is presumed that this is a secondary activity, and the primary function of this enzyme remains unknown.
Probab=33.74 E-value=37 Score=28.50 Aligned_cols=28 Identities=21% Similarity=0.386 Sum_probs=25.4
Q ss_pred EEEEEecCCCeeeeeeeeEEEeeeCCCC
Q psy9229 174 LTITISSSPPQVTTYSKAIKVTVDGPRE 201 (258)
Q Consensus 174 ltItv~t~PPqvAt~~~AIKVtvDGPRe 201 (258)
++|-|.-...++.+|+.-+.+--||||+
T Consensus 95 ~tipi~dG~L~LGtwQ~I~l~E~Dg~r~ 122 (132)
T TIGR00149 95 QHVPVENGRLQLGTWQGIFFAEFDGPRT 122 (132)
T ss_pred EEEEEeCCEEcccCccEEEEEECCCCCC
Confidence 6777778889999999999999999996
No 18
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=33.64 E-value=22 Score=26.46 Aligned_cols=24 Identities=25% Similarity=0.411 Sum_probs=17.4
Q ss_pred hhcccceeec----ceeeeecCCCCCcc
Q psy9229 149 VMKNQVAKFN----DLRFVGRSGRGKSF 172 (258)
Q Consensus 149 ~mknqvA~Fn----DLRFvGRSGRGKsf 172 (258)
..+++...|+ ..-+.|.+|.|||=
T Consensus 11 ~f~~~~~~~~~~g~~tli~G~nGsGKST 38 (62)
T PF13555_consen 11 SFDGETIDFDPRGDVTLITGPNGSGKST 38 (62)
T ss_pred ccCCeEEeecCCCcEEEEECCCCCCHHH
Confidence 3445666775 36689999999983
No 19
>PF01894 UPF0047: Uncharacterised protein family UPF0047; InterPro: IPR001602 This family contains small uncharacterised proteins of 14 to 16 kDa mainly from bacteria although the signatures also occur in a hypothetical protein from archaea and from yeast.; PDB: 1VPH_E 2P6C_A 2CU5_A 1VMJ_A 1XBF_B 1VMH_A 1VE0_A 2P6H_B 1VMF_C.
Probab=32.77 E-value=23 Score=29.20 Aligned_cols=29 Identities=31% Similarity=0.521 Sum_probs=22.0
Q ss_pred eEEEEEecCCCeeeeeeeeEEEeeeCCCC
Q psy9229 173 TLTITISSSPPQVTTYSKAIKVTVDGPRE 201 (258)
Q Consensus 173 tltItv~t~PPqvAt~~~AIKVtvDGPRe 201 (258)
.++|-|.-...++.+|+.-+.+--||||+
T Consensus 82 S~~vpv~~G~L~LGtwQ~I~l~E~dgpr~ 110 (118)
T PF01894_consen 82 SLTVPVHDGKLALGTWQGIYLVEFDGPRE 110 (118)
T ss_dssp EEEEEEETTEE---TTEEEEEEESS-SSE
T ss_pred eEEEEEECCEEccCCcCEEEEEECCCCCe
Confidence 37788888889999999999999999884
No 20
>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=32.61 E-value=20 Score=27.39 Aligned_cols=16 Identities=44% Similarity=0.650 Sum_probs=12.8
Q ss_pred eeeeecCCCCCcceEE
Q psy9229 160 LRFVGRSGRGKSFTLT 175 (258)
Q Consensus 160 LRFvGRSGRGKsftlt 175 (258)
+-++|++|.|||=-|.
T Consensus 14 ~~i~G~nGsGKStLl~ 29 (137)
T PF00005_consen 14 VAIVGPNGSGKSTLLK 29 (137)
T ss_dssp EEEEESTTSSHHHHHH
T ss_pred EEEEccCCCcccccee
Confidence 4689999999986554
No 21
>PRK14238 phosphate transporter ATP-binding protein; Provisional
Probab=32.49 E-value=30 Score=30.57 Aligned_cols=51 Identities=22% Similarity=0.327 Sum_probs=28.2
Q ss_pred eEEEEeccCCCccc-------eeccchhhhhcccceeeccee----------eeecCCCCCcceEEEEE
Q psy9229 127 TIVTIRAGNDENYC-------AELRNCTAVMKNQVAKFNDLR----------FVGRSGRGKSFTLTITI 178 (258)
Q Consensus 127 t~Vtv~AGNdEn~~-------aeLRN~~a~mknqvA~FnDLR----------FvGRSGRGKsftltItv 178 (258)
|+|-|...|+|..- =+++|.+-...+. ..|+|+- .+|.||.|||=-|.+-.
T Consensus 4 ~~~~~~~~~~~~~~~~~~~~~l~~~~l~~~~~~~-~il~~vsl~i~~Ge~~~I~G~nGsGKSTLl~~i~ 71 (271)
T PRK14238 4 TVVNVQVKNEEKIETAPKKVVFDTQNLNLWYGED-HALKNINLDIHENEVTAIIGPSGCGKSTYIKTLN 71 (271)
T ss_pred eEEEEEecchhhhccCCCceEEEEeeeEEEECCc-ceeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHH
Confidence 56667777766432 2344443322221 2344443 57999999997555433
No 22
>PF12846 AAA_10: AAA-like domain
Probab=32.39 E-value=12 Score=31.51 Aligned_cols=15 Identities=33% Similarity=0.660 Sum_probs=13.0
Q ss_pred eeeecCCCCCcceEE
Q psy9229 161 RFVGRSGRGKSFTLT 175 (258)
Q Consensus 161 RFvGRSGRGKsftlt 175 (258)
=++|.+|.|||+.+.
T Consensus 5 ~i~G~tGsGKT~~~~ 19 (304)
T PF12846_consen 5 LILGKTGSGKTTLLK 19 (304)
T ss_pred EEECCCCCcHHHHHH
Confidence 478999999998776
No 23
>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=30.00 E-value=25 Score=33.21 Aligned_cols=15 Identities=47% Similarity=0.660 Sum_probs=11.3
Q ss_pred eeeecCCCCCcceEE
Q psy9229 161 RFVGRSGRGKSFTLT 175 (258)
Q Consensus 161 RFvGRSGRGKsftlt 175 (258)
-.+|+||.|||=-|.
T Consensus 34 aiIG~SGaGKSTLLR 48 (258)
T COG3638 34 AIIGPSGAGKSTLLR 48 (258)
T ss_pred EEECCCCCcHHHHHH
Confidence 347999999995444
No 24
>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=29.95 E-value=20 Score=26.85 Aligned_cols=12 Identities=42% Similarity=0.761 Sum_probs=10.4
Q ss_pred eeeeecCCCCCc
Q psy9229 160 LRFVGRSGRGKS 171 (258)
Q Consensus 160 LRFvGRSGRGKs 171 (258)
.-++|++|.|||
T Consensus 2 V~iiG~~~~GKS 13 (116)
T PF01926_consen 2 VAIIGRPNVGKS 13 (116)
T ss_dssp EEEEESTTSSHH
T ss_pred EEEECCCCCCHH
Confidence 358999999998
No 25
>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=29.74 E-value=29 Score=30.10 Aligned_cols=32 Identities=25% Similarity=0.335 Sum_probs=19.4
Q ss_pred ccchhhhhcccceeecc-e-eeeecCCCCCcceEE
Q psy9229 143 LRNCTAVMKNQVAKFND-L-RFVGRSGRGKSFTLT 175 (258)
Q Consensus 143 LRN~~a~mknqvA~FnD-L-RFvGRSGRGKsftlt 175 (258)
|+|.... ++..-.|++ + -|+|++|.|||=-|.
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 343445554 2 689999999985443
No 26
>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=29.45 E-value=18 Score=29.08 Aligned_cols=13 Identities=38% Similarity=0.537 Sum_probs=0.0
Q ss_pred hhcccceeeccee
Q psy9229 149 VMKNQVAKFNDLR 161 (258)
Q Consensus 149 ~mknqvA~FnDLR 161 (258)
-||||++|||-.+
T Consensus 3 ~mkq~i~kf~~v~ 15 (83)
T PF05356_consen 3 GMKQAIAKFRPVP 15 (83)
T ss_dssp -------------
T ss_pred hHHHHHHhcCCcH
Confidence 5999999999875
No 27
>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=29.20 E-value=12 Score=34.90 Aligned_cols=46 Identities=28% Similarity=0.405 Sum_probs=28.3
Q ss_pred eeeeecCCCCCcceEEEEEecCCCeeeeeeeeEEEeeeCCC--CCCCCCCccee
Q psy9229 160 LRFVGRSGRGKSFTLTITISSSPPQVTTYSKAIKVTVDGPR--EPRSKTRKSFT 211 (258)
Q Consensus 160 LRFvGRSGRGKsftltItv~t~PPqvAt~~~AIKVtvDGPR--epRs~r~KSf~ 211 (258)
+-+||.||+|||=-|.|----..|+-.. |.+||.. +|...++--|+
T Consensus 32 vsilGpSGcGKSTLLriiAGL~~p~~G~------V~~~g~~v~~p~~~~~~vFQ 79 (248)
T COG1116 32 VAILGPSGCGKSTLLRLIAGLEKPTSGE------VLLDGRPVTGPGPDIGYVFQ 79 (248)
T ss_pred EEEECCCCCCHHHHHHHHhCCCCCCCce------EEECCcccCCCCCCEEEEec
Confidence 4568999999997666554455555543 6666654 44444443333
No 28
>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=29.15 E-value=23 Score=28.72 Aligned_cols=18 Identities=28% Similarity=0.241 Sum_probs=14.4
Q ss_pred eeeeecCCCCCcceEEEE
Q psy9229 160 LRFVGRSGRGKSFTLTIT 177 (258)
Q Consensus 160 LRFvGRSGRGKsftltIt 177 (258)
+-++|.||.|||=.+.+.
T Consensus 18 v~I~GpSGsGKSTLl~~l 35 (107)
T cd00820 18 VLITGDSGIGKTELALEL 35 (107)
T ss_pred EEEEcCCCCCHHHHHHHh
Confidence 468999999999766653
No 29
>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=28.99 E-value=22 Score=30.82 Aligned_cols=15 Identities=40% Similarity=0.543 Sum_probs=11.9
Q ss_pred eeeecCCCCCcceEE
Q psy9229 161 RFVGRSGRGKSFTLT 175 (258)
Q Consensus 161 RFvGRSGRGKsftlt 175 (258)
=+||.||.|||=.|.
T Consensus 29 ~IvG~NGsGKStll~ 43 (251)
T cd03273 29 AITGLNGSGKSNILD 43 (251)
T ss_pred EEECCCCCCHHHHHH
Confidence 479999999985543
No 30
>PF13304 AAA_21: AAA domain; PDB: 3QKS_B 1US8_B 1F2U_B 1F2T_B 3QKT_A 1II8_B 3QKR_B 3QKU_A.
Probab=28.70 E-value=19 Score=27.66 Aligned_cols=14 Identities=43% Similarity=0.698 Sum_probs=0.0
Q ss_pred eeecCCCCCcceEE
Q psy9229 162 FVGRSGRGKSFTLT 175 (258)
Q Consensus 162 FvGRSGRGKsftlt 175 (258)
+||.+|.|||--|.
T Consensus 4 iiG~N~sGKS~il~ 17 (303)
T PF13304_consen 4 IIGPNGSGKSNILE 17 (303)
T ss_dssp --------------
T ss_pred cccccccccccccc
Confidence 79999999997665
No 31
>PF02575 YbaB_DNA_bd: YbaB/EbfC DNA-binding family; InterPro: IPR004401 The function of this protein is unknown. It is restricted to bacteria and a few plants, such as Arabidopsis. The plant form contains an additional N-terminal region that may serve as a transit peptide and shows a close relationship to the cyanobacterial member, suggesting that it is a chloroplast protein. Members of this family are found in a single copy per bacterial genome, but are broadly distributed. A crystal structure of one member, YbaB from Haemophilus influenzae, revealed a core structure consisting of two layers, alpha/beta; YbaB forms a tight dimer with a 3-layer structure, beta/alpha/beta []. YbaB is co-transcribed with RecR, which appears to protect DNA strands of the replilcation fork when it is blocked by DNA damage. A deletion of the YbaB operon resulted in increased sensitivity to DNA-damaging agents compared with the wild-type strain.; PDB: 1PUG_B 3F42_B 1YBX_B 1J8B_A.
Probab=28.67 E-value=19 Score=27.11 Aligned_cols=26 Identities=19% Similarity=0.449 Sum_probs=18.4
Q ss_pred cchhhhhcccceeecceeeeecCCCC
Q psy9229 144 RNCTAVMKNQVAKFNDLRFVGRSGRG 169 (258)
Q Consensus 144 RN~~a~mknqvA~FnDLRFvGRSGRG 169 (258)
++..+.|+.--.++..++|.|.|+.|
T Consensus 5 ~~~~~~~~~~~~~l~~~~~~~~s~~g 30 (93)
T PF02575_consen 5 QEMQEKMEEAQEELAEIEVTGTSGDG 30 (93)
T ss_dssp HHHHHHHHHHHHHHHHSEEEEEETCC
T ss_pred HHHHHHHHHHHHHHhcCEEEEEECCC
Confidence 33444455555667789999999998
No 32
>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=28.56 E-value=25 Score=27.13 Aligned_cols=13 Identities=46% Similarity=0.705 Sum_probs=11.5
Q ss_pred ceeeeecCCCCCc
Q psy9229 159 DLRFVGRSGRGKS 171 (258)
Q Consensus 159 DLRFvGRSGRGKs 171 (258)
|+-+||++|.|||
T Consensus 2 ~v~ivG~~~~GKS 14 (170)
T cd01898 2 DVGLVGLPNAGKS 14 (170)
T ss_pred CeEEECCCCCCHH
Confidence 5679999999997
No 33
>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=28.40 E-value=36 Score=26.92 Aligned_cols=44 Identities=23% Similarity=0.193 Sum_probs=28.9
Q ss_pred EEEEeccCCCccceeccchhhhhcccceeecceeeeecCCCCCcc
Q psy9229 128 IVTIRAGNDENYCAELRNCTAVMKNQVAKFNDLRFVGRSGRGKSF 172 (258)
Q Consensus 128 ~Vtv~AGNdEn~~aeLRN~~a~mknqvA~FnDLRFvGRSGRGKsf 172 (258)
.+.+.|-+.++ ..||++....+-..-++.-..-++|.+|.|||=
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 45666655554 467777665543333445556899999999974
No 34
>PRK13159 cytochrome c-type biogenesis protein CcmE; Reviewed
Probab=28.17 E-value=71 Score=27.98 Aligned_cols=32 Identities=38% Similarity=0.621 Sum_probs=27.0
Q ss_pred CCCcceE----EEEeeecCCCeEE--EEeccCCCccce
Q psy9229 110 TLPVAFK----VVALGDVMDGTIV--TIRAGNDENYCA 141 (258)
Q Consensus 110 tLP~~Fk----Vvalg~v~DGt~V--tv~AGNdEn~~a 141 (258)
-||..|| ||+-|..-||+.+ +|.|--||||-.
T Consensus 92 ilPDlFrEGqgVVaeG~~~~g~F~A~~vLAKHde~YmP 129 (155)
T PRK13159 92 ILPDLFRDNQSVIANGRMQGGRFVANEVLAKHDETYMP 129 (155)
T ss_pred CCCccccCCCeEEEEEEEcCCEEEEeEEEecCCCcCCC
Confidence 5788887 9999988889844 899999999973
No 35
>KOG1068|consensus
Probab=27.81 E-value=36 Score=31.90 Aligned_cols=37 Identities=27% Similarity=0.311 Sum_probs=21.7
Q ss_pred cceEEEEEecCCCeeeeee-eeEEE--eeeCCCCCCCCCC
Q psy9229 171 SFTLTITISSSPPQVTTYS-KAIKV--TVDGPREPRSKTR 207 (258)
Q Consensus 171 sftltItv~t~PPqvAt~~-~AIKV--tvDGPRepRs~r~ 207 (258)
.|...|-+.++.--.|-++ .-.|| .|.||||+|.+..
T Consensus 25 ~i~~~~g~~~~a~GSay~E~GnTKVl~aV~GPre~~~~~~ 64 (245)
T KOG1068|consen 25 RIYARIGVLTQADGSAYMEQGNTKVLCAVYGPREIRGKSA 64 (245)
T ss_pred hhhhhcCccccCCccchhhcCCeEEEEEEeCCcccccccc
Confidence 3444455555554333332 12344 8999999998665
No 36
>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=27.69 E-value=30 Score=26.78 Aligned_cols=15 Identities=27% Similarity=0.587 Sum_probs=12.4
Q ss_pred cceeeeecCCCCCcc
Q psy9229 158 NDLRFVGRSGRGKSF 172 (258)
Q Consensus 158 nDLRFvGRSGRGKsf 172 (258)
-.+-++|.+|.|||=
T Consensus 8 ~~v~v~G~~~~GKSs 22 (169)
T cd04114 8 FKIVLIGNAGVGKTC 22 (169)
T ss_pred eEEEEECCCCCCHHH
Confidence 457899999999973
No 37
>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=26.98 E-value=26 Score=29.70 Aligned_cols=12 Identities=58% Similarity=0.805 Sum_probs=10.4
Q ss_pred eeeecCCCCCcc
Q psy9229 161 RFVGRSGRGKSF 172 (258)
Q Consensus 161 RFvGRSGRGKsf 172 (258)
=++|++|.|||=
T Consensus 27 ~i~GpNGsGKSt 38 (243)
T cd03272 27 VVVGRNGSGKSN 38 (243)
T ss_pred EEECCCCCCHHH
Confidence 489999999984
No 38
>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=26.88 E-value=21 Score=27.61 Aligned_cols=10 Identities=50% Similarity=0.687 Sum_probs=9.1
Q ss_pred eeecCCCCCc
Q psy9229 162 FVGRSGRGKS 171 (258)
Q Consensus 162 FvGRSGRGKs 171 (258)
|+|++|.|||
T Consensus 1 iiG~~~~GKS 10 (176)
T cd01881 1 LVGLPNVGKS 10 (176)
T ss_pred CCCCCCCcHH
Confidence 6899999998
No 39
>COG1132 MdlB ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]
Probab=26.84 E-value=24 Score=34.26 Aligned_cols=10 Identities=70% Similarity=1.022 Sum_probs=9.3
Q ss_pred eeecCCCCCc
Q psy9229 162 FVGRSGRGKS 171 (258)
Q Consensus 162 FvGRSGRGKs 171 (258)
+||+||.|||
T Consensus 360 iVG~sGsGKS 369 (567)
T COG1132 360 IVGPSGSGKS 369 (567)
T ss_pred EECCCCCCHH
Confidence 7999999996
No 40
>smart00175 RAB Rab subfamily of small GTPases. Rab GTPases are implicated in vesicle trafficking.
Probab=26.68 E-value=25 Score=26.82 Aligned_cols=14 Identities=43% Similarity=0.631 Sum_probs=11.3
Q ss_pred eeeeecCCCCCcce
Q psy9229 160 LRFVGRSGRGKSFT 173 (258)
Q Consensus 160 LRFvGRSGRGKsft 173 (258)
+-++|++|.||+=-
T Consensus 3 v~v~G~~~~GKTtl 16 (164)
T smart00175 3 IILIGDSGVGKSSL 16 (164)
T ss_pred EEEECCCCCCHHHH
Confidence 35899999999753
No 41
>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]
Probab=26.33 E-value=26 Score=36.61 Aligned_cols=26 Identities=42% Similarity=0.603 Sum_probs=16.8
Q ss_pred eeeeecCCCCCcceEEEEEecCCCee
Q psy9229 160 LRFVGRSGRGKSFTLTITISSSPPQV 185 (258)
Q Consensus 160 LRFvGRSGRGKsftltItv~t~PPqv 185 (258)
.-.|||||+|||==+.+-.--..|+.
T Consensus 502 vaIvG~SGsGKSTL~KLL~gly~p~~ 527 (709)
T COG2274 502 VAIVGRSGSGKSTLLKLLLGLYKPQQ 527 (709)
T ss_pred EEEECCCCCCHHHHHHHHhcCCCCCC
Confidence 35799999999954444444445543
No 42
>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=25.71 E-value=25 Score=30.35 Aligned_cols=30 Identities=30% Similarity=0.407 Sum_probs=19.6
Q ss_pred CCCccceeccchhhhhcccceeecceeeeecCCCCCcc
Q psy9229 135 NDENYCAELRNCTAVMKNQVAKFNDLRFVGRSGRGKSF 172 (258)
Q Consensus 135 NdEn~~aeLRN~~a~mknqvA~FnDLRFvGRSGRGKsf 172 (258)
++..-..||+.. +++ .-.-|+|-||.|||=
T Consensus 21 ~~~~g~~~l~~~---l~~-----k~~vl~G~SGvGKSS 50 (161)
T PF03193_consen 21 KTGEGIEELKEL---LKG-----KTSVLLGQSGVGKSS 50 (161)
T ss_dssp TTTTTHHHHHHH---HTT-----SEEEEECSTTSSHHH
T ss_pred CCCcCHHHHHHH---hcC-----CEEEEECCCCCCHHH
Confidence 345555666644 333 345799999999983
No 43
>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=24.94 E-value=27 Score=31.39 Aligned_cols=14 Identities=43% Similarity=0.705 Sum_probs=11.3
Q ss_pred eeeeecCCCCCcce
Q psy9229 160 LRFVGRSGRGKSFT 173 (258)
Q Consensus 160 LRFvGRSGRGKsft 173 (258)
+=++|++|.|||=.
T Consensus 34 IllvG~tGvGKSSl 47 (249)
T cd01853 34 ILVLGKTGVGKSST 47 (249)
T ss_pred EEEECCCCCcHHHH
Confidence 35899999999843
No 44
>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=23.82 E-value=30 Score=29.48 Aligned_cols=12 Identities=50% Similarity=0.686 Sum_probs=10.6
Q ss_pred eeeeecCCCCCc
Q psy9229 160 LRFVGRSGRGKS 171 (258)
Q Consensus 160 LRFvGRSGRGKs 171 (258)
+=|.|.||.|||
T Consensus 17 vLi~G~sG~GKS 28 (149)
T cd01918 17 VLITGPSGIGKS 28 (149)
T ss_pred EEEEcCCCCCHH
Confidence 458999999999
No 45
>TIGR02695 azurin azurin. Azurin is a blue copper-binding protein in the plastocyanin/azurin family (see Pfam model pfam00127). It serves as a redox partner to enzymes such as nitrite reductase or arsenite oxidase. The most closely related copper-binding proteins to this family are auracyanins, as in Chloroflexus aurantiacus, which have similar redox activities.
Probab=23.44 E-value=36 Score=28.97 Aligned_cols=13 Identities=38% Similarity=1.058 Sum_probs=10.6
Q ss_pred CceEeecCCCcccc
Q psy9229 94 PQFVCTVLPPHWRS 107 (258)
Q Consensus 94 P~~lcs~LP~HWR~ 107 (258)
=-|+||. |.||+-
T Consensus 106 Y~f~CSF-PGH~~~ 118 (125)
T TIGR02695 106 YTFFCSF-PGHWAM 118 (125)
T ss_pred ceEEEcC-CCcHHh
Confidence 4589997 999973
No 46
>PF00988 CPSase_sm_chain: Carbamoyl-phosphate synthase small chain, CPSase domain; InterPro: IPR002474 Carbamoyl phosphate synthase (CPSase) is a heterodimeric enzyme composed of a small and a large subunit (with the exception of CPSase III, see below). CPSase catalyses the synthesis of carbamoyl phosphate from biocarbonate, ATP and glutamine (6.3.5.5 from EC) or ammonia (6.3.4.16 from EC), and represents the first committed step in pyrimidine and arginine biosynthesis in prokaryotes and eukaryotes, and in the urea cycle in most terrestrial vertebrates [, ]. CPSase has three active sites, one in the small subunit and two in the large subunit. The small subunit contains the glutamine binding site and catalyses the hydrolysis of glutamine to glutamate and ammonia. The large subunit has two homologous carboxy phosphate domains, both of which have ATP-binding sites; however, the N-terminal carboxy phosphate domain catalyses the phosphorylation of biocarbonate, while the C-terminal domain catalyses the phosphorylation of the carbamate intermediate []. The carboxy phosphate domain found duplicated in the large subunit of CPSase is also present as a single copy in the biotin-dependent enzymes acetyl-CoA carboxylase (6.4.1.2 from EC) (ACC), propionyl-CoA carboxylase (6.4.1.3 from EC) (PCCase), pyruvate carboxylase (6.4.1.1 from EC) (PC) and urea carboxylase (6.3.4.6 from EC). Most prokaryotes carry one form of CPSase that participates in both arginine and pyrimidine biosynthesis, however certain bacteria can have separate forms. The large subunit in bacterial CPSase has four structural domains: the carboxy phosphate domain 1, the oligomerisation domain, the carbamoyl phosphate domain 2 and the allosteric domain []. CPSase heterodimers from Escherichia coli contain two molecular tunnels: an ammonia tunnel and a carbamate tunnel. These inter-domain tunnels connect the three distinct active sites, and function as conduits for the transport of unstable reaction intermediates (ammonia and carbamate) between successive active sites []. The catalytic mechanism of CPSase involves the diffusion of carbamate through the interior of the enzyme from the site of synthesis within the N-terminal domain of the large subunit to the site of phosphorylation within the C-terminal domain. Eukaryotes have two distinct forms of CPSase: a mitochondrial enzyme (CPSase I) that participates in both arginine biosynthesis and the urea cycle; and a cytosolic enzyme (CPSase II) involved in pyrimidine biosynthesis. CPSase II occurs as part of a multi-enzyme complex along with aspartate transcarbamoylase and dihydroorotase; this complex is referred to as the CAD protein []. The hepatic expression of CPSase is transcriptionally regulated by glucocorticoids and/or cAMP []. There is a third form of the enzyme, CPSase III, found in fish, which uses glutamine as a nitrogen source instead of ammonia []. CPSase III is closely related to CPSase I, and is composed of a single polypeptide that may have arisen from gene fusion of the glutaminase and synthetase domains []. This entry represents the N-terminal domain of the small subunit of carbamoyl phosphate synthase. The small subunit has a 3-layer beta/beta/alpha structure, and is thought to be mobile in most proteins that carry it. The C-terminal domain of the small subunit of CPSase has glutamine amidotransferase activity.; GO: 0006807 nitrogen compound metabolic process; PDB: 1CE8_B 1KEE_B 1CS0_D 1T36_D 1M6V_H 1A9X_F 1JDB_I 1BXR_F 1C3O_B 1C30_F ....
Probab=23.34 E-value=17 Score=30.88 Aligned_cols=24 Identities=29% Similarity=0.601 Sum_probs=12.6
Q ss_pred cCCCccccCCCCCcce---EEEEeeec
Q psy9229 100 VLPPHWRSNKTLPVAF---KVVALGDV 123 (258)
Q Consensus 100 ~LP~HWR~NKtLP~~F---kVvalg~v 123 (258)
..|+||||.++|..-. ||.++-.|
T Consensus 85 ~~~s~~~~~~sL~~~L~~~~ipgi~gv 111 (131)
T PF00988_consen 85 DIPSHWRSEMSLDEWLKEHGIPGISGV 111 (131)
T ss_dssp SS---TT-SB-HHHHHHHTT-EEEESS
T ss_pred CCCccccccCCHHHHHHHCCCeeeeCC
Confidence 3499999999998755 57776544
No 47
>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]
Probab=23.07 E-value=24 Score=33.18 Aligned_cols=49 Identities=27% Similarity=0.340 Sum_probs=31.7
Q ss_pred eeecceeeeecCCCCCcceEEEEEecCCCeeeeeeeeEEEeeeCCCCCCCCCCcc
Q psy9229 155 AKFNDLRFVGRSGRGKSFTLTITISSSPPQVTTYSKAIKVTVDGPREPRSKTRKS 209 (258)
Q Consensus 155 A~FnDLRFvGRSGRGKsftltItv~t~PPqvAt~~~AIKVtvDGPRepRs~r~KS 209 (258)
++=.-|=.||.||+|||=-..+-+--..|.-. .|++||..-++-+|.+.
T Consensus 31 ~~Ge~lgivGeSGsGKSTL~r~l~Gl~~p~~G------~I~~~G~~~~~~~~~~~ 79 (252)
T COG1124 31 ERGETLGIVGESGSGKSTLARLLAGLEKPSSG------SILLDGKPLAPKKRAKA 79 (252)
T ss_pred cCCCEEEEEcCCCCCHHHHHHHHhcccCCCCc------eEEECCcccCccccchh
Confidence 34445667999999999655555555555433 57899965555555443
No 48
>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=22.89 E-value=35 Score=26.66 Aligned_cols=13 Identities=23% Similarity=0.442 Sum_probs=11.2
Q ss_pred eeeeecCCCCCcc
Q psy9229 160 LRFVGRSGRGKSF 172 (258)
Q Consensus 160 LRFvGRSGRGKsf 172 (258)
+-++|.+|.|||=
T Consensus 17 v~i~G~~g~GKSt 29 (173)
T cd04155 17 ILILGLDNAGKTT 29 (173)
T ss_pred EEEEccCCCCHHH
Confidence 5789999999973
No 49
>PRK12289 GTPase RsgA; Reviewed
Probab=22.87 E-value=65 Score=30.75 Aligned_cols=36 Identities=25% Similarity=0.159 Sum_probs=23.8
Q ss_pred EEEEeccCCCccceeccchhhhhcccceeecceeeeecCCCCCcc
Q psy9229 128 IVTIRAGNDENYCAELRNCTAVMKNQVAKFNDLRFVGRSGRGKSF 172 (258)
Q Consensus 128 ~Vtv~AGNdEn~~aeLRN~~a~mknqvA~FnDLRFvGRSGRGKsf 172 (258)
.+.+.|-+.++. .||++... +. -+-|+|.||.|||=
T Consensus 152 v~~iSA~tg~GI-~eL~~~L~---~k-----i~v~iG~SgVGKSS 187 (352)
T PRK12289 152 PLFISVETGIGL-EALLEQLR---NK-----ITVVAGPSGVGKSS 187 (352)
T ss_pred EEEEEcCCCCCH-HHHhhhhc---cc-----eEEEEeCCCCCHHH
Confidence 455677777663 45555432 22 26899999999973
No 50
>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=22.77 E-value=35 Score=29.45 Aligned_cols=16 Identities=38% Similarity=0.551 Sum_probs=12.5
Q ss_pred eeeeecCCCCCcceEE
Q psy9229 160 LRFVGRSGRGKSFTLT 175 (258)
Q Consensus 160 LRFvGRSGRGKsftlt 175 (258)
.=|+|++|.|||=.+.
T Consensus 28 ~~ivGpNGaGKSTll~ 43 (212)
T cd03274 28 SAIVGPNGSGKSNVID 43 (212)
T ss_pred EEEECCCCCCHHHHHH
Confidence 3589999999986554
No 51
>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=22.70 E-value=33 Score=28.70 Aligned_cols=12 Identities=50% Similarity=0.819 Sum_probs=10.6
Q ss_pred eeeeecCCCCCc
Q psy9229 160 LRFVGRSGRGKS 171 (258)
Q Consensus 160 LRFvGRSGRGKs 171 (258)
+-++|++|.|||
T Consensus 4 I~i~G~~g~GKS 15 (197)
T cd04104 4 IAVTGESGAGKS 15 (197)
T ss_pred EEEECCCCCCHH
Confidence 468999999997
No 52
>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=22.53 E-value=32 Score=32.91 Aligned_cols=28 Identities=29% Similarity=0.355 Sum_probs=17.9
Q ss_pred ceeeeecCCCCCcceEEEEEecCCCeee
Q psy9229 159 DLRFVGRSGRGKSFTLTITISSSPPQVT 186 (258)
Q Consensus 159 DLRFvGRSGRGKsftltItv~t~PPqvA 186 (258)
=.-+||.||.|||=-+.+-.--.+|+-.
T Consensus 363 ~vaIvG~SGsGKSTLl~lL~g~~~p~~G 390 (529)
T TIGR02868 363 RVAILGPSGSGKSTLLMLLTGLLDPLQG 390 (529)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence 3467999999999444333344556544
No 53
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=22.32 E-value=41 Score=31.55 Aligned_cols=38 Identities=34% Similarity=0.406 Sum_probs=24.5
Q ss_pred eeecceeeeecCCCCCcceEEEEEecCCCeeeeeeeeEEEeeeC
Q psy9229 155 AKFNDLRFVGRSGRGKSFTLTITISSSPPQVTTYSKAIKVTVDG 198 (258)
Q Consensus 155 A~FnDLRFvGRSGRGKsftltItv~t~PPqvAt~~~AIKVtvDG 198 (258)
.+=.-+.++|.||+|||=-|..-..-.+|+.. .|+|||
T Consensus 26 ~~Gevv~iiGpSGSGKSTlLRclN~LE~~~~G------~I~i~g 63 (240)
T COG1126 26 EKGEVVVIIGPSGSGKSTLLRCLNGLEEPDSG------SITVDG 63 (240)
T ss_pred cCCCEEEEECCCCCCHHHHHHHHHCCcCCCCc------eEEECC
Confidence 33445678999999999766544444555544 255666
No 54
>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=22.27 E-value=34 Score=28.63 Aligned_cols=27 Identities=26% Similarity=0.474 Sum_probs=18.7
Q ss_pred eeeeecCCCCCcceEEEEEecCCCeee
Q psy9229 160 LRFVGRSGRGKSFTLTITISSSPPQVT 186 (258)
Q Consensus 160 LRFvGRSGRGKsftltItv~t~PPqvA 186 (258)
+-++|.||.|||=-+.+-.--.+|.-.
T Consensus 31 ~~i~G~nGsGKSTLl~~l~Gl~~~~~G 57 (220)
T cd03263 31 FGLLGHNGAGKTTTLKMLTGELRPTSG 57 (220)
T ss_pred EEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence 457899999999666555445566443
No 55
>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=22.26 E-value=35 Score=30.26 Aligned_cols=35 Identities=31% Similarity=0.371 Sum_probs=21.8
Q ss_pred EEEeccCCCccceeccchhhhhcccceeecceeeeecCCCCCcc
Q psy9229 129 VTIRAGNDENYCAELRNCTAVMKNQVAKFNDLRFVGRSGRGKSF 172 (258)
Q Consensus 129 Vtv~AGNdEn~~aeLRN~~a~mknqvA~FnDLRFvGRSGRGKsf 172 (258)
+.+.|-+.++ -.||.+..+ + .-.-|+|.||.|||=
T Consensus 101 ~~~SAktg~g-i~eLf~~l~---~-----~~~~~~G~sgvGKSt 135 (245)
T TIGR00157 101 LMTSSKNQDG-LKELIEALQ---N-----RISVFAGQSGVGKSS 135 (245)
T ss_pred EEEecCCchh-HHHHHhhhc---C-----CEEEEECCCCCCHHH
Confidence 4566666655 345554332 2 235699999999974
No 56
>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=21.90 E-value=36 Score=28.98 Aligned_cols=15 Identities=40% Similarity=0.621 Sum_probs=11.9
Q ss_pred eeeecCCCCCcceEE
Q psy9229 161 RFVGRSGRGKSFTLT 175 (258)
Q Consensus 161 RFvGRSGRGKsftlt 175 (258)
-++|+||.|||=-+.
T Consensus 26 ~i~G~nGsGKStll~ 40 (197)
T cd03278 26 AIVGPNGSGKSNIID 40 (197)
T ss_pred EEECCCCCCHHHHHH
Confidence 589999999985444
No 57
>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=21.81 E-value=35 Score=27.43 Aligned_cols=13 Identities=46% Similarity=0.593 Sum_probs=10.8
Q ss_pred eeeeecCCCCCcc
Q psy9229 160 LRFVGRSGRGKSF 172 (258)
Q Consensus 160 LRFvGRSGRGKsf 172 (258)
+-++|.||.||+=
T Consensus 4 i~l~G~~GsGKsT 16 (180)
T TIGR03263 4 IVISGPSGVGKST 16 (180)
T ss_pred EEEECCCCCCHHH
Confidence 3579999999985
No 58
>TIGR00296 uncharacterized protein, PH0010 family. Members of this functionally uncharacterized protein family have been crystallized from Pyrococcus Horikoshii, Methanosarcina Mazei, and Sulfolobus Tokodaii.
Probab=21.52 E-value=50 Score=29.47 Aligned_cols=58 Identities=21% Similarity=0.398 Sum_probs=38.1
Q ss_pred CCCeEEEEeccCCCccceeccchh-----------hhhcccc-eeecceeeeecCCC-CCcceEEEEEecCCCee
Q psy9229 124 MDGTIVTIRAGNDENYCAELRNCT-----------AVMKNQV-AKFNDLRFVGRSGR-GKSFTLTITISSSPPQV 185 (258)
Q Consensus 124 ~DGt~Vtv~AGNdEn~~aeLRN~~-----------a~mknqv-A~FnDLRFvGRSGR-GKsftltItv~t~PPqv 185 (258)
+-|+-||+...++ .+||.|. ++.+|-+ |.|+|=||-==+=. =+..++.|+|.+.|=.+
T Consensus 43 ~~g~FVTl~~~~~----~~LRGCIGs~~p~~pL~~~v~~~A~~AA~~DpRF~Pl~~~EL~~l~ieVSvL~~~e~i 113 (200)
T TIGR00296 43 KRGVFITLKKKGN----KHLRGCIGTPEPVMPLIEAIEEAAISAATEDPRFPPVQLEELDDIKVEVSILTPPETI 113 (200)
T ss_pred cccEEEEEEECCC----cCCCcccccCCCcccHHHHHHHHHHHHHcCCCCCCCCChHHhCCcEEEEEeCCCCEEc
Confidence 6788999975433 2588874 3445554 89999999431111 14677888888877444
No 59
>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=21.47 E-value=36 Score=28.27 Aligned_cols=27 Identities=30% Similarity=0.348 Sum_probs=18.5
Q ss_pred eeeeecCCCCCcceEEEEEecCCCeee
Q psy9229 160 LRFVGRSGRGKSFTLTITISSSPPQVT 186 (258)
Q Consensus 160 LRFvGRSGRGKsftltItv~t~PPqvA 186 (258)
+=++|.||.|||=-|.+-.--.+|.-.
T Consensus 30 ~~l~G~nGsGKSTLl~~l~G~~~~~~G 56 (211)
T cd03225 30 VLIVGPNGSGKSTLLRLLNGLLGPTSG 56 (211)
T ss_pred EEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence 457899999999766654444556433
No 60
>KOG0951|consensus
Probab=21.46 E-value=70 Score=36.86 Aligned_cols=81 Identities=23% Similarity=0.388 Sum_probs=51.8
Q ss_pred ecCCCceEeecCCCccccCCC-CCcceEEEEee--ecCCCeEEE-----EeccCCCccceeccchhhhhcccceee----
Q psy9229 90 RTGSPQFVCTVLPPHWRSNKT-LPVAFKVVALG--DVMDGTIVT-----IRAGNDENYCAELRNCTAVMKNQVAKF---- 157 (258)
Q Consensus 90 ~T~sP~~lcs~LP~HWR~NKt-LP~~FkVvalg--~v~DGt~Vt-----v~AGNdEn~~aeLRN~~a~mknqvA~F---- 157 (258)
-+.-|+++-.++-.||-|.-+ ||+.|+=++|- -.|++-..- ++|=+..++..-.-+. .+-|+.-|
T Consensus 1080 ~~~pP~~fi~lvSd~wl~s~~~~Pvsfr~l~lpek~p~pt~lld~~~~~~~~l~N~~~~~lf~~~---n~iqtqVf~~~y 1156 (1674)
T KOG0951|consen 1080 FEPPPQYFIRLVSDRWLHSETVLPVSFRHLILPEKYPPPTELLDLQPLPVSALRNPSFETLFQDF---NPIQTQVFTSLY 1156 (1674)
T ss_pred CCCCCceEEEEeeccccCCCcccccchhhccCcccCCCCchhhhccccchhccCCcchhhhcccc---CCceEEEEeeee
Confidence 345788888888888877655 89999988885 345554332 2332222222222222 44455555
Q ss_pred --cceeeee-cCCCCCcce
Q psy9229 158 --NDLRFVG-RSGRGKSFT 173 (258)
Q Consensus 158 --nDLRFvG-RSGRGKsft 173 (258)
||+-||| +.|.||.|-
T Consensus 1157 ~~nd~v~vga~~gsgkt~~ 1175 (1674)
T KOG0951|consen 1157 NTNDNVLVGAPNGSGKTAC 1175 (1674)
T ss_pred cccceEEEecCCCCchhHH
Confidence 7999999 999999873
No 61
>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=21.37 E-value=36 Score=27.96 Aligned_cols=26 Identities=35% Similarity=0.381 Sum_probs=17.9
Q ss_pred eeeeecCCCCCcceEEEEEecCCCee
Q psy9229 160 LRFVGRSGRGKSFTLTITISSSPPQV 185 (258)
Q Consensus 160 LRFvGRSGRGKsftltItv~t~PPqv 185 (258)
+-++|+||.|||=-|.+-.--.+|.-
T Consensus 21 ~~i~G~nGsGKSTLl~~i~G~~~~~~ 46 (190)
T TIGR01166 21 LALLGANGAGKSTLLLHLNGLLRPQS 46 (190)
T ss_pred EEEECCCCCCHHHHHHHHhCCCCCCc
Confidence 45789999999976655444445543
No 62
>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=21.32 E-value=36 Score=25.82 Aligned_cols=12 Identities=50% Similarity=0.664 Sum_probs=10.3
Q ss_pred eeeeecCCCCCc
Q psy9229 160 LRFVGRSGRGKS 171 (258)
Q Consensus 160 LRFvGRSGRGKs 171 (258)
+-++|++|.||+
T Consensus 3 i~~vG~~~vGKT 14 (168)
T cd04119 3 VISMGNSGVGKS 14 (168)
T ss_pred EEEECCCCCCHH
Confidence 458999999996
No 63
>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=21.26 E-value=36 Score=28.38 Aligned_cols=27 Identities=30% Similarity=0.583 Sum_probs=18.9
Q ss_pred eeeeecCCCCCcceEEEEEecCCCeee
Q psy9229 160 LRFVGRSGRGKSFTLTITISSSPPQVT 186 (258)
Q Consensus 160 LRFvGRSGRGKsftltItv~t~PPqvA 186 (258)
+-++|.||.|||=-|.+-.--.+|+-.
T Consensus 29 ~~i~G~nGsGKSTLl~~l~Gl~~~~~G 55 (222)
T cd03224 29 VALLGRNGAGKTTLLKTIMGLLPPRSG 55 (222)
T ss_pred EEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence 457899999999766655445566543
No 64
>PF14564 Membrane_bind: Membrane binding; PDB: 1YHP_A 2B1O_A.
Probab=21.03 E-value=93 Score=25.55 Aligned_cols=24 Identities=29% Similarity=0.484 Sum_probs=18.4
Q ss_pred ceeee-ecCCCCCcceEEEEEecCC
Q psy9229 159 DLRFV-GRSGRGKSFTLTITISSSP 182 (258)
Q Consensus 159 DLRFv-GRSGRGKsftltItv~t~P 182 (258)
|+||+ ..++-++.|.|+|......
T Consensus 3 ~irlv~~~~~~~~~Y~l~i~~~~v~ 27 (110)
T PF14564_consen 3 DIRLVDNTGGPAGKYSLTIKPYGVD 27 (110)
T ss_dssp EEEEEESS-TT-TTEEEEEEETT--
T ss_pred EEEEEEcCCCCCcEEEEEEEeeecC
Confidence 78999 8999999999999988755
No 65
>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=20.96 E-value=47 Score=25.64 Aligned_cols=13 Identities=23% Similarity=0.416 Sum_probs=10.9
Q ss_pred eeeeecCCCCCcc
Q psy9229 160 LRFVGRSGRGKSF 172 (258)
Q Consensus 160 LRFvGRSGRGKsf 172 (258)
+-++|++|.|||=
T Consensus 2 i~~vG~~~~GKst 14 (167)
T cd04160 2 VLILGLDNAGKTT 14 (167)
T ss_pred EEEEecCCCCHHH
Confidence 4589999999973
No 66
>PF12568 DUF3749: Acetyltransferase (GNAT) domain; InterPro: IPR024612 This domain is found in uncharacterised proteins from Gammaproteobacteria, and is approximately 40 amino acids in length. It contains two completely conserved residues (D and I) that may be functionally important. Proteins having this domain are frequently annotated as acetyltransferases of the GNAT family; however there is little accompanying annotation to confirm this.; PDB: 2K5T_A.
Probab=20.89 E-value=51 Score=28.13 Aligned_cols=10 Identities=60% Similarity=1.192 Sum_probs=8.9
Q ss_pred ceeecceeeee
Q psy9229 154 VAKFNDLRFVG 164 (258)
Q Consensus 154 vA~FnDLRFvG 164 (258)
+|+||| |.+|
T Consensus 42 aArFNd-RlLg 51 (128)
T PF12568_consen 42 AARFND-RLLG 51 (128)
T ss_dssp EEEETT-EEEE
T ss_pred EEEech-heee
Confidence 699999 8887
No 67
>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=20.83 E-value=37 Score=25.29 Aligned_cols=11 Identities=45% Similarity=0.676 Sum_probs=9.1
Q ss_pred eeecCCCCCcc
Q psy9229 162 FVGRSGRGKSF 172 (258)
Q Consensus 162 FvGRSGRGKsf 172 (258)
..|.||.|||-
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 68
>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=20.73 E-value=48 Score=27.69 Aligned_cols=31 Identities=35% Similarity=0.434 Sum_probs=19.2
Q ss_pred eccchhhhh-cccceeecc--eeeeecCCCCCcc
Q psy9229 142 ELRNCTAVM-KNQVAKFND--LRFVGRSGRGKSF 172 (258)
Q Consensus 142 eLRN~~a~m-knqvA~FnD--LRFvGRSGRGKsf 172 (258)
+|.|..... ++..-.|.. .-|+|.+|.|||=
T Consensus 6 ~i~nFr~~~~~~~~~~~~~~~~~i~G~NGsGKS~ 39 (220)
T PF02463_consen 6 EIENFRNFKGKNAELSFSPGLNVIVGPNGSGKSN 39 (220)
T ss_dssp EEESBTTC-SCEEEEETTSSEEEEEESTTSSHHH
T ss_pred EEcCceEEecCeEEEecCCCCEEEEcCCCCCHHH
Confidence 344544444 444445555 5789999999984
No 69
>PRK13150 cytochrome c-type biogenesis protein CcmE; Reviewed
Probab=20.70 E-value=1.2e+02 Score=26.68 Aligned_cols=35 Identities=34% Similarity=0.557 Sum_probs=26.8
Q ss_pred CCCcceE----EEEeeecC-CCeE--EEEeccCCCccc-eecc
Q psy9229 110 TLPVAFK----VVALGDVM-DGTI--VTIRAGNDENYC-AELR 144 (258)
Q Consensus 110 tLP~~Fk----Vvalg~v~-DGt~--Vtv~AGNdEn~~-aeLR 144 (258)
-||..|| ||+-|..- ||+. =+|.|.-||+|. .|+-
T Consensus 98 ilPDlFrEG~gVVveG~~~~~g~F~A~evLAKhdekYmPpEv~ 140 (159)
T PRK13150 98 ILPDLFREGQGVVVQGTLEKGNHVLAHEVLAKHDENYTPPEVE 140 (159)
T ss_pred cCCccccCCCeEEEEEEECCCCEEEEeEEEeCCCCCCCCHHHH
Confidence 4777776 99999875 5665 379999999997 4543
No 70
>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=20.62 E-value=27 Score=29.49 Aligned_cols=15 Identities=40% Similarity=0.625 Sum_probs=12.7
Q ss_pred eeeecCCCCCcceEE
Q psy9229 161 RFVGRSGRGKSFTLT 175 (258)
Q Consensus 161 RFvGRSGRGKsftlt 175 (258)
=.+|.+|.|||+++.
T Consensus 27 ~I~G~TGsGKS~~~~ 41 (229)
T PF01935_consen 27 AIFGTTGSGKSNTVK 41 (229)
T ss_pred EEECCCCCCHHHHHH
Confidence 357899999999887
No 71
>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=20.60 E-value=38 Score=28.26 Aligned_cols=25 Identities=36% Similarity=0.502 Sum_probs=17.3
Q ss_pred eeeeecCCCCCcceEEEEEecCCCe
Q psy9229 160 LRFVGRSGRGKSFTLTITISSSPPQ 184 (258)
Q Consensus 160 LRFvGRSGRGKsftltItv~t~PPq 184 (258)
+-.+|+||.|||=-|.+-.--.+|+
T Consensus 28 ~~l~G~nGsGKSTLl~~l~G~~~p~ 52 (213)
T cd03235 28 LAIVGPNGAGKSTLLKAILGLLKPT 52 (213)
T ss_pred EEEECCCCCCHHHHHHHHcCCCCCC
Confidence 3578999999997666544444554
No 72
>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=20.59 E-value=38 Score=28.20 Aligned_cols=25 Identities=28% Similarity=0.587 Sum_probs=17.5
Q ss_pred eeeeecCCCCCcceEEEEEecCCCe
Q psy9229 160 LRFVGRSGRGKSFTLTITISSSPPQ 184 (258)
Q Consensus 160 LRFvGRSGRGKsftltItv~t~PPq 184 (258)
+-++|.||.|||=-|.+-.--.+|.
T Consensus 28 ~~i~G~nGsGKSTLl~~l~Gl~~~~ 52 (211)
T cd03264 28 YGLLGPNGAGKTTLMRILATLTPPS 52 (211)
T ss_pred EEEECCCCCCHHHHHHHHhCCCCCC
Confidence 5689999999997665444444554
No 73
>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=20.57 E-value=41 Score=25.17 Aligned_cols=12 Identities=42% Similarity=0.675 Sum_probs=10.5
Q ss_pred eeeeecCCCCCc
Q psy9229 160 LRFVGRSGRGKS 171 (258)
Q Consensus 160 LRFvGRSGRGKs 171 (258)
+-++|.+|.|||
T Consensus 4 i~l~G~~~~GKs 15 (157)
T cd04164 4 VVIVGKPNVGKS 15 (157)
T ss_pred EEEECCCCCCHH
Confidence 458999999998
No 74
>COG1135 AbcC ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=20.50 E-value=38 Score=33.16 Aligned_cols=15 Identities=47% Similarity=0.631 Sum_probs=11.9
Q ss_pred eeeecCCCCCcceEE
Q psy9229 161 RFVGRSGRGKSFTLT 175 (258)
Q Consensus 161 RFvGRSGRGKsftlt 175 (258)
=.+|+||.|||==|.
T Consensus 36 GIIG~SGAGKSTLiR 50 (339)
T COG1135 36 GIIGYSGAGKSTLLR 50 (339)
T ss_pred EEEcCCCCcHHHHHH
Confidence 469999999995544
No 75
>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=20.49 E-value=39 Score=28.74 Aligned_cols=27 Identities=33% Similarity=0.508 Sum_probs=18.8
Q ss_pred eeeeecCCCCCcceEEEEEecCCCeee
Q psy9229 160 LRFVGRSGRGKSFTLTITISSSPPQVT 186 (258)
Q Consensus 160 LRFvGRSGRGKsftltItv~t~PPqvA 186 (258)
+-++|.||.|||=-|.+-.--.+|.-.
T Consensus 29 ~~l~G~nGsGKSTLl~~l~G~~~p~~G 55 (235)
T cd03261 29 LAIIGPSGSGKSTLLRLIVGLLRPDSG 55 (235)
T ss_pred EEEECCCCCCHHHHHHHHhCCCCCCce
Confidence 457899999999655555455566544
No 76
>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=20.41 E-value=39 Score=28.03 Aligned_cols=34 Identities=35% Similarity=0.521 Sum_probs=21.7
Q ss_pred eeeeecCCCCCcceEEEEEecCCCeeeeeeeeEEEeeeCC
Q psy9229 160 LRFVGRSGRGKSFTLTITISSSPPQVTTYSKAIKVTVDGP 199 (258)
Q Consensus 160 LRFvGRSGRGKsftltItv~t~PPqvAt~~~AIKVtvDGP 199 (258)
+-.+|.||.|||=-|.+-.--.+|+-.. |++||-
T Consensus 30 ~~i~G~nGsGKSTLl~~l~G~~~~~~G~------i~~~g~ 63 (214)
T cd03292 30 VFLVGPSGAGKSTLLKLIYKEELPTSGT------IRVNGQ 63 (214)
T ss_pred EEEECCCCCCHHHHHHHHhcCCCCCceE------EEECCE
Confidence 3568999999996555444445665442 455663
No 77
>PRK14257 phosphate ABC transporter ATP-binding protein; Provisional
Probab=20.29 E-value=39 Score=31.36 Aligned_cols=17 Identities=47% Similarity=0.571 Sum_probs=13.3
Q ss_pred eeeeecCCCCCcceEEE
Q psy9229 160 LRFVGRSGRGKSFTLTI 176 (258)
Q Consensus 160 LRFvGRSGRGKsftltI 176 (258)
+-++|++|.|||=-|.+
T Consensus 111 v~IvG~~GsGKSTLl~~ 127 (329)
T PRK14257 111 TAFIGPSGCGKSTFLRN 127 (329)
T ss_pred EEEECCCCCCHHHHHHH
Confidence 46799999999965553
No 78
>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=20.28 E-value=46 Score=25.09 Aligned_cols=13 Identities=23% Similarity=0.424 Sum_probs=11.1
Q ss_pred eeeeecCCCCCcc
Q psy9229 160 LRFVGRSGRGKSF 172 (258)
Q Consensus 160 LRFvGRSGRGKsf 172 (258)
+-++|.+|.|||=
T Consensus 3 i~i~G~~~~GKSt 15 (162)
T cd04123 3 VVLLGEGRVGKTS 15 (162)
T ss_pred EEEECCCCCCHHH
Confidence 4689999999985
No 79
>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=20.20 E-value=46 Score=25.24 Aligned_cols=12 Identities=50% Similarity=0.720 Sum_probs=10.6
Q ss_pred eeeeecCCCCCc
Q psy9229 160 LRFVGRSGRGKS 171 (258)
Q Consensus 160 LRFvGRSGRGKs 171 (258)
+-++|.+|.||+
T Consensus 3 i~~~G~~~~GKT 14 (164)
T cd04139 3 VIVVGAGGVGKS 14 (164)
T ss_pred EEEECCCCCCHH
Confidence 468999999998
No 80
>PF09547 Spore_IV_A: Stage IV sporulation protein A (spore_IV_A); InterPro: IPR014201 This entry is designated stage IV sporulation protein A. It acts in the mother cell compartment and plays a role in spore coat morphogenesis []. A comparative genome analysis of all sequenced genomes of Firmicutes shows that the proteins are strictly conserved among the sub-set of endospore-forming species.
Probab=20.20 E-value=67 Score=32.93 Aligned_cols=64 Identities=27% Similarity=0.332 Sum_probs=47.6
Q ss_pred HhhhhcCCcccccCCccccccCCcccc--ccc-cccccchhhhhhhhhhhhhhcCCCceeecCCCceE
Q psy9229 33 LAERTLGDFLSEHPGELVRTEGNTGNL--LND-TYSKMTSDILAERTLGDFLSEHPGELVRTGSPQFV 97 (258)
Q Consensus 33 laert~g~~~sehpGelvrtg~~~~~~--~~~-~~~~~~~~~~~e~~~~~~l~~~~~elv~T~sP~~l 97 (258)
+|+||.||..=-++| -||||-+|-.- ++- -...|....-.||...|+=|.-.|..+-|.-|-|+
T Consensus 10 Ia~RT~GdIYiGVVG-PVRTGKSTFIKRFMel~VlPnI~d~~~reRa~DELPQS~aGktImTTEPKFi 76 (492)
T PF09547_consen 10 IAERTGGDIYIGVVG-PVRTGKSTFIKRFMELLVLPNIEDEYERERARDELPQSGAGKTIMTTEPKFI 76 (492)
T ss_pred HHHhcCCceEEEeec-CcccCchhHHHHHHHHhcCCCCCCHHHHHHhhhcCCcCCCCCceeccCCccc
Confidence 689999998777777 58999998311 110 11234445567899999999999999999999875
No 81
>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=20.11 E-value=40 Score=28.07 Aligned_cols=27 Identities=30% Similarity=0.416 Sum_probs=18.5
Q ss_pred eeeeecCCCCCcceEEEEEecCCCeee
Q psy9229 160 LRFVGRSGRGKSFTLTITISSSPPQVT 186 (258)
Q Consensus 160 LRFvGRSGRGKsftltItv~t~PPqvA 186 (258)
+=++|.||.|||=-+.+-.---+|+-.
T Consensus 31 ~~l~G~nGsGKSTLl~~i~Gl~~~~~G 57 (214)
T TIGR02673 31 LFLTGPSGAGKTTLLKLLYGALTPSRG 57 (214)
T ss_pred EEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence 347899999999766654444456543
Done!