Query         gi|254780226|ref|YP_003064639.1| translation-associated GTPase [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 367
No_of_seqs    152 out of 2957
Neff          7.7 
Searched_HMMs 39220
Date          Mon May 23 21:42:10 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780226.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 PRK09601 translation-associate 100.0       0       0  965.8  34.4  364    1-367     1-364 (364)
  2 PTZ00258 GTP-binding protein;  100.0       0       0  959.6  30.9  364    1-367    21-388 (392)
  3 TIGR00092 TIGR00092 GTP-bindin 100.0       0       0  931.5  25.0  367    1-367     1-390 (390)
  4 COG0012 Predicted GTPase, prob 100.0       0       0  860.9  28.0  366    1-367     1-372 (372)
  5 KOG1491 consensus              100.0       0       0  758.3  27.2  365    1-367    19-391 (391)
  6 PRK09602 translation-associate 100.0       0       0  730.4  26.7  333    1-364     1-393 (396)
  7 cd01900 YchF YchF subfamily.   100.0       0       0  637.4  24.3  274    5-281     1-274 (274)
  8 cd01899 Ygr210 Ygr210 subfamil 100.0       0       0  556.5  16.7  280    5-294     1-309 (318)
  9 COG1163 DRG Predicted GTPase [ 100.0       0       0  335.5  12.6  287    4-364    65-363 (365)
 10 cd01896 DRG The developmentall 100.0 1.6E-39 4.2E-44  286.2  15.6  224    4-289     2-233 (233)
 11 PRK12296 obgE GTPase ObgE; Rev 100.0 4.1E-38   1E-42  276.8  18.9  165    4-245   161-325 (495)
 12 TIGR02729 Obg_CgtA GTP-binding 100.0 9.5E-39 2.4E-43  281.0   9.6  115    4-134   160-274 (296)
 13 PRK12297 obgE GTPase ObgE; Rev 100.0 6.7E-38 1.7E-42  275.3  13.8  172    4-284   160-331 (429)
 14 PRK12298 obgE GTPase ObgE; Rev 100.0 1.3E-36 3.4E-41  266.6  13.9  174    4-285   161-336 (380)
 15 PRK12299 obgE GTPase ObgE; Rev 100.0 3.3E-36 8.5E-41  263.9  14.3  168    4-282   160-327 (334)
 16 pfam06071 YchF-GTPase_C Protei 100.0 1.5E-35 3.8E-40  259.5   7.7   84  283-366     1-84  (84)
 17 COG0536 Obg Predicted GTPase [ 100.0 3.3E-34 8.3E-39  250.4  13.0  106    4-133   161-266 (369)
 18 cd04867 TGS_YchF_C TGS_YchF_C: 100.0 9.8E-35 2.5E-39  254.0   7.4   83  283-365     1-83  (83)
 19 KOG1486 consensus              100.0 1.3E-32 3.4E-37  239.6   9.5  279    4-364    64-362 (364)
 20 cd01881 Obg_like The Obg-like  100.0 1.4E-31 3.5E-36  232.8  13.2  176    7-281     1-176 (176)
 21 cd01898 Obg Obg subfamily.  Th 100.0 4.4E-28 1.1E-32  209.1  14.3  168    4-281     2-170 (170)
 22 KOG1489 consensus              100.0 7.9E-29   2E-33  214.2  10.4  159    4-250   198-357 (366)
 23 KOG1487 consensus               99.9 9.7E-28 2.5E-32  206.8   5.5  279    4-363    61-355 (358)
 24 cd01878 HflX HflX subfamily.    99.9 5.1E-22 1.3E-26  168.2  13.9   87    4-109    43-132 (204)
 25 cd01897 NOG NOG1 is a nucleola  99.9 3.3E-21 8.5E-26  162.7  13.5  164    4-281     2-167 (168)
 26 cd04164 trmE TrmE (MnmE, ThdF,  99.9 4.5E-21 1.2E-25  161.8  12.2   91    2-109     1-92  (157)
 27 TIGR03156 GTP_HflX GTP-binding  99.8 2.9E-20 7.3E-25  156.4  11.9   87    4-109   191-280 (351)
 28 cd01895 EngA2 EngA2 subfamily.  99.8 9.4E-20 2.4E-24  152.9  13.8   91    2-109     2-96  (174)
 29 pfam02421 FeoB_N Ferrous iron   99.8   7E-20 1.8E-24  153.8  12.4   86    4-108     1-88  (188)
 30 cd04163 Era Era subfamily.  Er  99.8 1.1E-19 2.9E-24  152.4  13.1   91    2-109     3-94  (168)
 31 cd00880 Era_like Era (E. coli   99.8 1.2E-19 3.1E-24  152.2  12.6   87    7-109     1-87  (163)
 32 cd01879 FeoB Ferrous iron tran  99.8   9E-20 2.3E-24  153.1  11.9   83    7-108     1-85  (158)
 33 cd01894 EngA1 EngA1 subfamily.  99.8 4.9E-19 1.3E-23  148.1  11.3   87    6-109     1-88  (157)
 34 PRK00089 era GTP-binding prote  99.8 2.8E-18 7.1E-23  143.0  13.5   92    1-109     4-99  (296)
 35 COG1160 Predicted GTPases [Gen  99.8 1.5E-17 3.8E-22  138.1  11.7   92    1-109     1-95  (444)
 36 PRK00093 engA GTP-binding prot  99.7 1.4E-16 3.5E-21  131.7  13.3   91    1-109     1-93  (438)
 37 cd04938 TGS_Obg-like TGS_Obg-l  99.7 9.6E-19 2.5E-23  146.1   1.7   65  283-365     1-76  (76)
 38 cd01669 TGS_Ygr210_C TGS_Ygr21  99.7 4.7E-18 1.2E-22  141.5   3.8   65  283-364     1-75  (76)
 39 TIGR03594 GTPase_EngA ribosome  99.7 3.2E-16 8.1E-21  129.2  12.9   89    4-109     1-90  (429)
 40 PRK04213 GTP-binding protein;   99.7 3.4E-16 8.8E-21  128.9  12.5   86    1-109     1-94  (195)
 41 PRK03003 engA GTP-binding prot  99.7 3.5E-16   9E-21  128.8  12.2   89    4-109    40-129 (474)
 42 PRK09554 feoB ferrous iron tra  99.7 1.1E-16 2.9E-21  132.2   9.4   88    2-109     3-97  (772)
 43 cd01876 YihA_EngB The YihA (En  99.7   2E-16 5.2E-21  130.4  10.2   84    4-108     1-92  (170)
 44 TIGR03594 GTPase_EngA ribosome  99.7 9.5E-16 2.4E-20  126.0  12.2   91    2-109   172-266 (429)
 45 PRK00093 engA GTP-binding prot  99.7 2.3E-15 5.9E-20  123.3  12.0   91    2-109   172-266 (438)
 46 PRK03003 engA GTP-binding prot  99.6 1.4E-14 3.7E-19  118.0  14.0   91    2-109   211-305 (474)
 47 PRK09518 bifunctional cytidyla  99.6 1.4E-14 3.7E-19  118.0  12.6   89    4-109   281-370 (714)
 48 PRK11058 putative GTPase HflX;  99.6 4.4E-15 1.1E-19  121.5   9.3   87    4-109   199-288 (426)
 49 PRK00454 engB GTPase EngB; Rev  99.6 6.8E-15 1.7E-19  120.2  10.0   83    3-107    25-116 (196)
 50 TIGR00437 feoB ferrous iron tr  99.6 4.2E-15 1.1E-19  121.6   8.9   82    9-109     1-85  (733)
 51 PRK09518 bifunctional cytidyla  99.6 4.7E-14 1.2E-18  114.5  13.2   91    2-109   452-546 (714)
 52 COG1159 Era GTPase [General fu  99.6 5.7E-14 1.5E-18  114.0  12.0   92    1-109     2-97  (298)
 53 TIGR03598 GTPase_YsxC ribosome  99.5   1E-13 2.7E-18  112.2   8.2   55    3-77     19-74  (179)
 54 COG1084 Predicted GTPase [Gene  99.5 4.4E-13 1.1E-17  108.0   9.6   58    4-79    170-227 (346)
 55 COG2262 HflX GTPases [General   99.4 1.5E-13 3.9E-18  111.1   5.6   87    4-109   194-283 (411)
 56 cd04171 SelB SelB subfamily.    99.4 5.3E-12 1.3E-16  100.7  11.6   84    3-109     1-86  (164)
 57 COG0370 FeoB Fe2+ transport sy  99.4 1.2E-12   3E-17  105.1   7.6   90    1-109     2-93  (653)
 58 pfam01926 MMR_HSR1 GTPase of u  99.4 9.1E-13 2.3E-17  105.9   6.9   79   14-109     1-80  (106)
 59 PRK05291 trmE tRNA modificatio  99.4 2.9E-12 7.4E-17  102.5   8.9   92    2-110   216-308 (445)
 60 pfam10662 PduV-EutP Ethanolami  99.4 3.4E-12 8.8E-17  101.9   8.1   75    1-109     1-75  (143)
 61 cd01887 IF2_eIF5B IF2/eIF5B (i  99.3 9.4E-11 2.4E-15   92.3  12.4   84    4-109     2-85  (168)
 62 cd01666 TGS_DRG_C TGS_DRG_C:    99.3 5.1E-12 1.3E-16  100.8   4.3   69  283-363     1-73  (75)
 63 pfam00009 GTP_EFTU Elongation   99.2 7.7E-11   2E-15   92.9   9.4   96    4-109     5-102 (185)
 64 TIGR00450 thdF tRNA modificati  99.2 5.1E-11 1.3E-15   94.1   8.4   92    2-110   225-317 (473)
 65 COG0486 ThdF Predicted GTPase   99.2 8.8E-11 2.2E-15   92.5   9.5   91    2-109   217-308 (454)
 66 KOG1490 consensus               99.1 3.9E-10 9.9E-15   88.1   6.8   87    4-110   170-260 (620)
 67 COG1160 Predicted GTPases [Gen  99.0 1.2E-09   3E-14   84.9   8.4   91    2-109   178-272 (444)
 68 cd04105 SR_beta Signal recogni  99.0 3.9E-09   1E-13   81.3  11.0   81    5-109     3-84  (203)
 69 cd04155 Arl3 Arl3 subfamily.    99.0 5.7E-09 1.4E-13   80.3  10.8   80    2-109    14-93  (173)
 70 pfam00025 Arf ADP-ribosylation  99.0 4.4E-09 1.1E-13   81.0  10.0   80    2-109    14-93  (174)
 71 cd04154 Arl2 Arl2 subfamily.    99.0 1.1E-08 2.9E-13   78.2  11.7   80    2-109    14-93  (173)
 72 cd04160 Arfrp1 Arfrp1 subfamil  99.0   1E-08 2.6E-13   78.6  10.8   80    5-109     2-85  (167)
 73 pfam09439 SRPRB Signal recogni  99.0 6.7E-09 1.7E-13   79.8   9.8   80    4-109     5-87  (181)
 74 KOG1191 consensus               99.0 7.9E-09   2E-13   79.3   9.9   89    2-107   268-358 (531)
 75 KOG1423 consensus               98.9 3.1E-09   8E-14   82.0   7.5   92    2-110    72-168 (379)
 76 cd00881 GTP_translation_factor  98.9 4.1E-08 1.1E-12   74.5  12.9   80    5-109     2-97  (189)
 77 cd01858 NGP_1 NGP-1.  Autoanti  98.9 1.4E-09 3.6E-14   84.4   5.2   56    2-77    102-157 (157)
 78 cd01856 YlqF YlqF.  Proteins o  98.9 2.8E-09 7.1E-14   82.3   5.8   35    3-37    116-150 (171)
 79 cd00878 Arf_Arl Arf (ADP-ribos  98.9 1.8E-08 4.6E-13   76.8   9.9   78    4-109     1-78  (158)
 80 cd01616 TGS The TGS domain, na  98.9 1.9E-09   5E-14   83.4   4.8   58  285-364     2-59  (60)
 81 cd01849 YlqF_related_GTPase Yl  98.9 2.7E-09   7E-14   82.4   5.0   56    2-77    100-155 (155)
 82 TIGR03596 GTPase_YlqF ribosome  98.9   3E-09 7.7E-14   82.1   5.0   59    2-80    118-176 (276)
 83 PRK09563 rbgA ribosomal biogen  98.8 4.1E-09   1E-13   81.2   5.0   59    2-80    121-179 (282)
 84 cd01859 MJ1464 MJ1464.  This f  98.8 6.3E-09 1.6E-13   80.0   5.6   34    4-37    103-136 (156)
 85 cd04156 ARLTS1 ARLTS1 subfamil  98.8 5.8E-08 1.5E-12   73.5  10.3   79    4-109     1-79  (160)
 86 COG1161 Predicted GTPases [Gen  98.8 7.6E-09 1.9E-13   79.4   5.7   61    2-82    132-192 (322)
 87 cd01857 HSR1_MMR1 HSR1/MMR1.    98.8 8.1E-09 2.1E-13   79.2   5.8   57    3-79     84-140 (141)
 88 cd04159 Arl10_like Arl10-like   98.8 8.5E-08 2.2E-12   72.3  11.0   79    4-109     1-79  (159)
 89 cd04157 Arl6 Arl6 subfamily.    98.8 5.8E-08 1.5E-12   73.4  10.0   79    5-109     2-80  (162)
 90 PTZ00133 ADP-ribosylation fact  98.8 2.5E-07 6.5E-12   69.1  12.6   80    2-109    17-96  (182)
 91 KOG0410 consensus               98.8 1.2E-08   3E-13   78.2   5.1   87    4-109   180-269 (410)
 92 smart00177 ARF ARF-like small   98.8 3.5E-07   9E-12   68.2  12.6   80    2-109    13-92  (175)
 93 smart00178 SAR Sar1p-like memb  98.7 1.2E-07   3E-12   71.3   9.7   80    2-109    17-96  (184)
 94 cd04161 Arl2l1_Arl13_like Arl2  98.7 8.7E-08 2.2E-12   72.3   8.8   77    5-109     2-78  (167)
 95 cd00882 Ras_like_GTPase Ras-li  98.7 1.2E-07 3.2E-12   71.2   9.1  146    7-246     1-146 (157)
 96 cd04158 ARD1 ARD1 subfamily.    98.7 5.6E-07 1.4E-11   66.8  12.4   78    4-109     1-78  (169)
 97 cd04153 Arl5_Arl8 Arl5/Arl8 su  98.7 2.8E-07 7.2E-12   68.8  10.7   80    2-109    15-94  (174)
 98 cd01890 LepA LepA subfamily.    98.7 6.1E-07 1.6E-11   66.6  12.4   95    4-109     2-102 (179)
 99 cd04150 Arf1_5_like Arf1-Arf5-  98.7 3.1E-07   8E-12   68.5  10.7   79    3-109     1-79  (159)
100 cd01668 TGS_RelA_SpoT TGS_RelA  98.7 2.3E-08 5.7E-13   76.2   4.4   52  294-364     8-59  (60)
101 cd04149 Arf6 Arf6 subfamily.    98.6 4.8E-07 1.2E-11   67.3  10.6   80    2-109     9-88  (168)
102 pfam02824 TGS TGS domain. The   98.6 6.5E-08 1.7E-12   73.1   5.1   50  296-364    10-59  (60)
103 cd04152 Arl4_Arl7 Arl4/Arl7 su  98.6 3.7E-06 9.4E-11   61.3  13.8   85    2-109     3-87  (183)
104 cd00154 Rab Rab family.  Rab G  98.6 1.5E-06 3.8E-11   64.0  11.7  148    3-246     1-148 (159)
105 cd04151 Arl1 Arl1 subfamily.    98.6   1E-06 2.6E-11   65.1  10.6   78    4-109     1-78  (158)
106 pfam00071 Ras Ras family. Incl  98.6 1.8E-06 4.6E-11   63.4  11.8  147    4-246     1-147 (162)
107 TIGR00691 spoT_relA RelA/SpoT   98.6 1.1E-07 2.7E-12   71.7   5.3   63  282-366   380-443 (741)
108 PRK11092 bifunctional (p)ppGpp  98.6 8.6E-08 2.2E-12   72.3   4.8   62  282-365   386-447 (702)
109 PRK10872 relA GDP/GTP pyrophos  98.5 1.8E-07 4.5E-12   70.2   5.2   62  282-365   404-465 (743)
110 KOG1424 consensus               98.4 2.5E-07 6.3E-12   69.2   4.4   69    3-93    315-384 (562)
111 cd00879 Sar1 Sar1 subfamily.    98.4   2E-06 5.2E-11   63.1   9.1   80    2-109    19-98  (190)
112 KOG2484 consensus               98.4 3.8E-07 9.7E-12   68.0   5.1   79    2-105   252-330 (435)
113 COG0317 SpoT Guanosine polypho  98.4 5.3E-07 1.3E-11   67.0   5.8   63  282-366   387-449 (701)
114 pfam00350 Dynamin_N Dynamin fa  98.4 6.9E-07 1.8E-11   66.2   5.3  101    5-109     1-140 (168)
115 cd01892 Miro2 Miro2 subfamily.  98.4 1.5E-05 3.9E-10   57.1  12.1  147    3-248     5-154 (169)
116 smart00175 RAB Rab subfamily o  98.4 1.9E-05 4.8E-10   56.5  12.5  148    3-246     1-148 (164)
117 cd01863 Rab18 Rab18 subfamily.  98.3 1.5E-05 3.9E-10   57.1  11.9  150    3-248     1-150 (161)
118 cd04139 RalA_RalB RalA/RalB su  98.3 1.7E-05 4.4E-10   56.8  11.7  148    3-246     1-148 (164)
119 cd04119 RJL RJL (RabJ-Like) su  98.3 2.7E-05 6.9E-10   55.4  12.1  152    3-245     1-152 (168)
120 TIGR03597 GTPase_YqeH ribosome  98.3 1.1E-06 2.8E-11   64.9   4.4   57    4-80    156-217 (360)
121 cd04146 RERG_RasL11_like RERG/  98.2 6.3E-05 1.6E-09   53.0  12.9  147    4-245     1-148 (165)
122 cd04123 Rab21 Rab21 subfamily.  98.2 3.5E-05   9E-10   54.7  11.6  146    3-246     1-148 (162)
123 cd00876 Ras Ras family.  The R  98.2 3.9E-05 9.9E-10   54.4  11.5  146    4-245     1-146 (160)
124 cd04112 Rab26 Rab26 subfamily.  98.2 6.9E-05 1.8E-09   52.7  12.8  149    3-248     1-151 (191)
125 cd04114 Rab30 Rab30 subfamily.  98.2 6.6E-05 1.7E-09   52.9  12.5  149    2-246     7-155 (169)
126 cd04138 H_N_K_Ras_like H-Ras/N  98.2 3.3E-05 8.4E-10   54.9  10.9  147    3-246     2-148 (162)
127 cd04125 RabA_like RabA-like su  98.2 8.9E-05 2.3E-09   52.0  12.6  150    3-248     1-150 (188)
128 cd04101 RabL4 RabL4 (Rab-like4  98.2   7E-05 1.8E-09   52.7  12.1  148    3-246     1-150 (164)
129 cd04142 RRP22 RRP22 subfamily.  98.2 4.5E-05 1.1E-09   54.0  11.1  157    3-248     1-162 (198)
130 cd04124 RabL2 RabL2 subfamily.  98.2   7E-05 1.8E-09   52.7  11.8  146    3-248     1-146 (161)
131 cd04143 Rhes_like Rhes_like su  98.2 0.00024 6.1E-09   49.1  14.5  157    3-248     1-159 (247)
132 cd01868 Rab11_like Rab11-like.  98.2 7.2E-05 1.8E-09   52.6  11.8  149    2-246     3-151 (165)
133 cd04144 Ras2 Ras2 subfamily.    98.1   5E-05 1.3E-09   53.6  10.8  148    4-246     1-149 (190)
134 cd04113 Rab4 Rab4 subfamily.    98.1 0.00012   3E-09   51.2  12.6  148    3-246     1-148 (161)
135 KOG0073 consensus               98.1   3E-05 7.7E-10   55.1   9.4  140    1-244    15-162 (185)
136 cd01869 Rab1_Ypt1 Rab1/Ypt1 su  98.1 0.00015 3.8E-09   50.5  12.9  151    2-248     2-152 (166)
137 cd04127 Rab27A Rab27a subfamil  98.1 7.1E-05 1.8E-09   52.6  11.2  160    2-246     4-163 (180)
138 cd01867 Rab8_Rab10_Rab13_like   98.1 0.00016   4E-09   50.3  12.8  151    2-248     3-153 (167)
139 cd04140 ARHI_like ARHI subfami  98.1 7.5E-05 1.9E-09   52.5  11.1  149    3-246     2-151 (165)
140 cd04117 Rab15 Rab15 subfamily.  98.1 9.1E-05 2.3E-09   51.9  11.6  150    3-248     1-150 (161)
141 smart00173 RAS Ras subfamily o  98.1 5.5E-05 1.4E-09   53.4  10.3  148    3-246     1-148 (164)
142 cd01866 Rab2 Rab2 subfamily.    98.1 0.00012 3.1E-09   51.0  11.9  151    2-248     4-154 (168)
143 cd04110 Rab35 Rab35 subfamily.  98.1 0.00015 3.8E-09   50.4  12.1  148    2-248     6-155 (199)
144 cd04162 Arl9_Arfrp2_like Arl9/  98.1 2.4E-05 6.2E-10   55.8   8.0   79    4-109     1-79  (164)
145 cd04148 RGK RGK subfamily.  Th  98.1 0.00014 3.6E-09   50.6  11.9  149    3-248     1-151 (221)
146 cd04122 Rab14 Rab14 subfamily.  98.1 7.2E-05 1.8E-09   52.6  10.4  149    2-248     2-152 (166)
147 cd04137 RheB Rheb (Ras Homolog  98.1 0.00024 6.2E-09   49.0  13.1  148    4-248     3-151 (180)
148 PRK13796 GTP-binding protein Y  98.1 4.6E-06 1.2E-10   60.7   4.2   35    5-39    165-204 (367)
149 COG0218 Predicted GTPase [Gene  98.1   7E-06 1.8E-10   59.4   5.1   54    3-76     25-79  (200)
150 cd01855 YqeH YqeH.  YqeH is an  98.0 7.1E-06 1.8E-10   59.4   5.0   47  201-249    60-114 (190)
151 cd04104 p47_IIGP_like p47 (47-  98.0 1.2E-05 3.2E-10   57.7   6.2   87    2-106     1-89  (197)
152 cd04115 Rab33B_Rab33A Rab33B/R  98.0 0.00016 4.1E-09   50.3  11.7  144    3-243     3-149 (170)
153 cd01862 Rab7 Rab7 subfamily.    98.0 0.00026 6.7E-09   48.8  12.7  154    3-248     1-155 (172)
154 cd04107 Rab32_Rab38 Rab38/Rab3  98.0 0.00011 2.8E-09   51.4  10.6  153    3-248     1-156 (201)
155 cd04141 Rit_Rin_Ric Rit/Rin/Ri  98.0 0.00016 4.2E-09   50.2  11.4  150    3-248     3-152 (172)
156 cd01853 Toc34_like Toc34-like   98.0 5.6E-05 1.4E-09   53.3   8.9   88    2-107    31-124 (249)
157 cd04147 Ras_dva Ras-dva subfam  98.0 0.00016   4E-09   50.3  11.0   80    4-108     1-81  (198)
158 cd04145 M_R_Ras_like M-Ras/R-R  98.0 0.00018 4.6E-09   49.9  11.2  149    2-246     2-150 (164)
159 cd04136 Rap_like Rap-like subf  98.0 0.00013 3.4E-09   50.8  10.6  147    3-246     2-149 (163)
160 cd04176 Rap2 Rap2 subgroup.  T  98.0 0.00017 4.4E-09   50.0  11.1  148    2-246     1-149 (163)
161 cd04118 Rab24 Rab24 subfamily.  98.0 0.00012 3.1E-09   51.0  10.3  149    3-248     1-154 (193)
162 cd01860 Rab5_related Rab5-rela  98.0 0.00033 8.4E-09   48.1  12.4  149    2-246     1-149 (163)
163 cd01861 Rab6 Rab6 subfamily.    98.0 0.00036 9.1E-09   47.9  12.6  147    4-246     2-148 (161)
164 cd01864 Rab19 Rab19 subfamily.  98.0 0.00027 6.9E-09   48.7  12.0  150    2-247     3-153 (165)
165 cd04121 Rab40 Rab40 subfamily.  98.0 0.00017 4.4E-09   50.0  10.9  149    3-248     7-155 (189)
166 cd01865 Rab3 Rab3 subfamily.    98.0 0.00033 8.4E-09   48.1  12.3  148    3-246     2-149 (165)
167 cd04120 Rab12 Rab12 subfamily.  97.9 0.00062 1.6E-08   46.3  13.4  151    3-249     1-152 (202)
168 cd01891 TypA_BipA TypA (tyrosi  97.9 0.00018 4.5E-09   50.0  10.6   91    4-109     4-100 (194)
169 cd04116 Rab9 Rab9 subfamily.    97.9  0.0002   5E-09   49.7  10.7  153    3-248     6-159 (170)
170 cd04111 Rab39 Rab39 subfamily.  97.9  0.0005 1.3E-08   46.9  12.7  151    2-248     2-154 (211)
171 cd04106 Rab23_lke Rab23-like s  97.9 0.00017 4.3E-09   50.1  10.2  151    3-248     1-151 (162)
172 cd00157 Rho Rho (Ras homology)  97.9 0.00027 6.9E-09   48.7  11.2   81    3-108     1-82  (171)
173 cd04175 Rap1 Rap1 subgroup.  T  97.9 0.00016   4E-09   50.3  10.0  151    2-248     1-151 (164)
174 cd04109 Rab28 Rab28 subfamily.  97.9 0.00036 9.2E-09   47.9  11.7  147    3-248     1-154 (215)
175 cd04108 Rab36_Rab34 Rab34/Rab3  97.9 0.00058 1.5E-08   46.5  12.7  151    4-248     2-153 (170)
176 KOG0090 consensus               97.9 1.3E-05 3.3E-10   57.6   3.8   78    4-109    40-120 (238)
177 PTZ00132 GTP-binding nuclear p  97.9 0.00031 7.8E-09   48.3  10.8  148    2-248     6-153 (209)
178 cd04103 Centaurin_gamma Centau  97.8  0.0004   1E-08   47.6  10.8  143    3-246     1-145 (158)
179 cd04135 Tc10 TC10 subfamily.    97.8 0.00064 1.6E-08   46.2  11.5   82    3-109     1-83  (174)
180 cd04168 TetM_like Tet(M)-like   97.8  0.0017 4.2E-08   43.4  13.4   91    4-109     1-99  (237)
181 cd00877 Ran Ran (Ras-related n  97.8 0.00091 2.3E-08   45.2  12.0  147    3-248     1-147 (166)
182 COG1100 GTPase SAR1 and relate  97.8 0.00011 2.9E-09   51.2   7.2   82    3-108     6-88  (219)
183 cd04128 Spg1 Spg1p.  Spg1p (se  97.8 0.00041   1E-08   47.5  10.1   84    3-109     1-84  (182)
184 cd04177 RSR1 RSR1 subgroup.  R  97.8  0.0013 3.2E-08   44.2  12.5   82    3-109     2-84  (168)
185 TIGR00475 selB selenocysteine-  97.8 0.00027 6.8E-09   48.8   8.8   80    3-108     1-90  (627)
186 KOG2423 consensus               97.7 2.3E-05 5.9E-10   55.9   3.2   61    3-83    308-368 (572)
187 cd01870 RhoA_like RhoA-like su  97.7 0.00091 2.3E-08   45.2  10.9   82    3-108     2-83  (175)
188 pfam05049 IIGP Interferon-indu  97.7 0.00061 1.6E-08   46.3   9.6   88    2-107    35-124 (375)
189 cd04133 Rop_like Rop subfamily  97.7 0.00079   2E-08   45.6  10.1   81    3-107     2-82  (176)
190 pfam08477 Miro Miro-like prote  97.6 0.00063 1.6E-08   46.2   8.9   84    4-109     1-84  (118)
191 cd01873 RhoBTB RhoBTB subfamil  97.5 0.00071 1.8E-08   45.9   8.6   93    2-108     2-98  (195)
192 cd01889 SelB_euk SelB subfamil  97.5 0.00094 2.4E-08   45.1   8.6   96    3-108     1-102 (192)
193 TIGR00231 small_GTP small GTP-  97.5  0.0002 5.1E-09   49.6   4.9   98    2-105     3-105 (186)
194 TIGR00436 era GTP-binding prot  97.4 0.00028 7.2E-09   48.6   5.1   90    4-110     2-94  (278)
195 cd01888 eIF2_gamma eIF2-gamma   97.4 0.00075 1.9E-08   45.8   7.0   23    3-25      1-23  (203)
196 cd04170 EF-G_bact Elongation f  97.4  0.0032 8.2E-08   41.5  10.1   97    4-109     1-99  (268)
197 smart00174 RHO Rho (Ras homolo  97.4  0.0028   7E-08   41.9   9.8   79    5-108     1-80  (174)
198 TIGR00650 MG442 GTP-binding co  97.3 0.00026 6.7E-09   48.8   4.1   18    8-25      1-31  (123)
199 COG3596 Predicted GTPase [Gene  97.3   0.001 2.6E-08   44.9   6.8   90    2-108    39-128 (296)
200 cd01893 Miro1 Miro1 subfamily.  97.2  0.0054 1.4E-07   39.9   9.4   81    3-108     1-81  (166)
201 cd01871 Rac1_like Rac1-like su  97.1  0.0041 1.1E-07   40.7   8.4   83    2-108     1-83  (174)
202 KOG0075 consensus               97.1 0.00043 1.1E-08   47.4   3.1   78    3-109    21-100 (186)
203 KOG2485 consensus               97.0  0.0011 2.8E-08   44.6   4.7   66    3-85    144-214 (335)
204 CHL00189 infB translation init  97.0   0.029 7.4E-07   35.0  11.7  112    5-146   275-410 (770)
205 cd04102 RabL3 RabL3 (Rab-like3  97.0  0.0055 1.4E-07   39.9   7.9   87    3-109     1-89  (202)
206 cd01874 Cdc42 Cdc42 subfamily.  96.9  0.0082 2.1E-07   38.7   8.6   83    2-108     1-83  (175)
207 PRK12312 infB translation init  96.9    0.01 2.6E-07   38.1   8.9  111    5-147   120-252 (610)
208 smart00176 RAN Ran (Ras-relate  96.9   0.014 3.5E-07   37.2   9.2  140    8-246     1-140 (200)
209 cd04130 Wrch_1 Wrch-1 subfamil  96.9   0.011 2.7E-07   38.0   8.6   82    3-108     1-82  (173)
210 PRK05306 infB translation init  96.8   0.041   1E-06   34.1  11.5  110    5-147   344-477 (839)
211 cd04126 Rab20 Rab20 subfamily.  96.8    0.01 2.7E-07   38.0   8.3   79    3-109     1-79  (220)
212 cd04132 Rho4_like Rho4-like su  96.8   0.013 3.2E-07   37.5   8.4   83    4-109     2-84  (187)
213 KOG0074 consensus               96.7   0.011 2.9E-07   37.8   7.9   78    3-110    18-97  (185)
214 cd01875 RhoG RhoG subfamily.    96.7   0.019 4.9E-07   36.2   8.7   83    2-108     3-85  (191)
215 KOG0070 consensus               96.7  0.0067 1.7E-07   39.3   6.3   80    2-109    17-96  (181)
216 KOG0078 consensus               96.6   0.027 6.9E-07   35.2   9.3  144    2-247    12-161 (207)
217 pfam04670 Gtr1_RagA Gtr1/RagA   96.5   0.016 4.2E-07   36.7   7.5   82    4-108     1-87  (230)
218 TIGR02528 EutP ethanolamine ut  96.5  0.0094 2.4E-07   38.3   6.0   77    4-112     2-78  (144)
219 pfam04548 AIG1 AIG1 family. Ar  96.4   0.026 6.6E-07   35.3   8.2   83    3-107     1-93  (200)
220 PRK11300 livG leucine/isoleuci  96.4   0.077   2E-06   32.2  10.4   32    5-48     34-65  (255)
221 cd04167 Snu114p Snu114p subfam  96.4   0.016 4.1E-07   36.8   6.8   94    4-109     2-106 (213)
222 PRK13695 putative NTPase; Prov  96.3  0.0034 8.6E-08   41.3   3.0   24    1-24      2-25  (174)
223 PRK05433 GTP-binding protein L  96.3   0.039 9.9E-07   34.2   8.4  109    5-133    10-150 (601)
224 PRK04000 translation initiatio  96.3   0.015 3.7E-07   37.0   6.2   94    3-109     9-119 (410)
225 TIGR00750 lao LAO/AO transport  96.3  0.0028 7.1E-08   41.9   2.5   22    3-24     39-60  (333)
226 cd04129 Rho2 Rho2 subfamily.    96.2   0.032 8.2E-07   34.7   7.7   82    3-108     2-83  (187)
227 cd04131 Rnd Rnd subfamily.  Th  96.2   0.053 1.4E-06   33.3   8.7   82    3-108     2-83  (178)
228 cd01886 EF-G Elongation factor  96.1   0.035 8.8E-07   34.5   7.5   89    4-109     1-99  (270)
229 cd04173 Rnd2_Rho7 Rnd2/Rho7 su  96.1   0.072 1.8E-06   32.4   9.2   82    3-108     2-83  (222)
230 cd01884 EF_Tu EF-Tu subfamily.  96.1   0.031 7.9E-07   34.8   7.3   90    3-109     3-100 (195)
231 cd04174 Rnd1_Rho6 Rnd1/Rho6 su  96.1   0.033 8.4E-07   34.7   7.4   84    1-108    12-95  (232)
232 COG0488 Uup ATPase components   96.1   0.009 2.3E-07   38.5   4.5   41    3-46     30-70  (530)
233 COG1116 TauB ABC-type nitrate/  96.1   0.012 3.1E-07   37.6   5.1   45    5-49     32-81  (248)
234 TIGR00993 3a0901s04IAP86 chlor  96.1  0.0082 2.1E-07   38.7   4.2   88    2-107   124-217 (772)
235 cd04134 Rho3 Rho3 subfamily.    96.1   0.055 1.4E-06   33.2   8.4   81    4-108     2-82  (189)
236 KOG1954 consensus               96.1   0.035 8.9E-07   34.5   7.3  103    5-108    61-192 (532)
237 PRK12735 elongation factor Tu;  96.0   0.017 4.2E-07   36.7   5.3   88    2-109    12-110 (396)
238 cd01885 EF2 EF2 (for archaea a  95.9   0.041   1E-06   34.0   6.9   91    4-109     2-108 (222)
239 cd04172 Rnd3_RhoE_Rho8 Rnd3/Rh  95.9   0.094 2.4E-06   31.6   8.7   83    2-108     5-87  (182)
240 cd04169 RF3 RF3 subfamily.  Pe  95.9   0.056 1.4E-06   33.1   7.6   89    4-109     4-106 (267)
241 KOG0084 consensus               95.8    0.17 4.4E-06   29.8   9.8   84    3-109    10-93  (205)
242 COG4172 ABC-type uncharacteriz  95.8    0.11 2.7E-06   31.2   8.7   32    4-35     38-69  (534)
243 PRK00741 prfC peptide chain re  95.7     0.1 2.6E-06   31.4   8.4   89    4-109    12-114 (526)
244 PRK00049 elongation factor Tu;  95.6   0.076 1.9E-06   32.2   7.4   81    3-109    13-111 (397)
245 smart00053 DYNc Dynamin, GTPas  95.6   0.096 2.5E-06   31.5   7.9   23    4-26     28-50  (240)
246 PRK13646 cbiO cobalt transport  95.6    0.21 5.5E-06   29.2  12.7  196    4-275    35-255 (286)
247 PRK10419 nikE nickel transport  95.6    0.22 5.5E-06   29.1  11.5  168    4-245    40-213 (266)
248 KOG0076 consensus               95.5   0.028 7.3E-07   35.1   5.0   80    3-109    18-104 (197)
249 pfam00735 Septin Septin. Membe  95.5   0.064 1.6E-06   32.7   6.8   67    3-77      5-72  (280)
250 pfam08438 MMR_HSR1_C GTPase of  95.5    0.01 2.6E-07   38.1   2.6   58  227-284     6-92  (92)
251 cd01883 EF1_alpha Eukaryotic e  95.4    0.11 2.9E-06   31.1   7.8   94    5-109     2-112 (219)
252 cd03221 ABCF_EF-3 ABCF_EF-3  E  95.4   0.022 5.7E-07   35.8   4.2   34    4-49     28-61  (144)
253 cd03301 ABC_MalK_N The N-termi  95.4    0.15 3.7E-06   30.3   8.3   34    4-49     28-61  (213)
254 cd03245 ABCC_bacteriocin_expor  95.4   0.018 4.7E-07   36.4   3.6   36    3-50     31-66  (220)
255 PRK13351 elongation factor G;   95.4    0.11 2.8E-06   31.1   7.6   90    4-110    10-109 (687)
256 PRK11819 putative ABC transpor  95.4   0.024 6.1E-07   35.6   4.1   24    3-26     34-57  (556)
257 KOG0395 consensus               95.3    0.23 5.9E-06   28.9   9.0   79    3-107     4-84  (196)
258 cd01852 AIG1 AIG1 (avrRpt2-ind  95.3    0.19 4.7E-06   29.6   8.5   84    3-107     1-93  (196)
259 cd03293 ABC_NrtD_SsuB_transpor  95.2   0.028   7E-07   35.2   4.1   33    4-48     32-64  (220)
260 cd03249 ABC_MTABC3_MDL1_MDL2 M  95.2    0.02 5.1E-07   36.1   3.3   35    3-49     30-64  (238)
261 PRK10636 putative ABC transpor  95.2   0.027 6.8E-07   35.3   3.9   28    4-31     29-56  (638)
262 KOG0448 consensus               95.2    0.12   3E-06   30.9   7.2  102    2-107   109-242 (749)
263 COG0012 Predicted GTPase, prob  95.2    0.03 7.7E-07   34.9   4.2   61  259-327   279-349 (372)
264 cd01882 BMS1 Bms1.  Bms1 is an  95.2   0.065 1.7E-06   32.7   5.8   89    2-131    39-127 (225)
265 PRK13768 GTPase; Provisional    95.1   0.045 1.2E-06   33.7   4.9   24    1-24      1-24  (253)
266 cd03298 ABC_ThiQ_thiamine_tran  95.1    0.03 7.7E-07   34.9   4.0   32    4-47     26-57  (211)
267 cd04166 CysN_ATPS CysN_ATPS su  95.1    0.17 4.2E-06   29.9   7.7   96    4-109     1-112 (208)
268 COG1134 TagH ABC-type polysacc  95.0    0.03 7.6E-07   35.0   3.8   33    4-48     55-87  (249)
269 pfam03308 ArgK ArgK protein. T  95.0   0.019   5E-07   36.2   2.8   23    2-24     29-51  (267)
270 cd03259 ABC_Carb_Solutes_like   95.0   0.025 6.5E-07   35.4   3.3   34    4-49     28-61  (213)
271 PRK11248 tauB taurine transpor  95.0    0.04   1E-06   34.1   4.3   33    5-49     30-62  (255)
272 cd03252 ABCC_Hemolysin The ABC  95.0   0.025 6.4E-07   35.5   3.3   34    4-49     30-63  (237)
273 cd03290 ABCC_SUR1_N The SUR do  94.9   0.028 7.2E-07   35.1   3.4   22    4-25     29-50  (218)
274 cd01850 CDC_Septin CDC/Septin.  94.9    0.03 7.7E-07   34.9   3.5   65    3-77      5-73  (276)
275 cd03369 ABCC_NFT1 Domain 2 of   94.8   0.028 7.1E-07   35.1   3.3   34    4-49     36-69  (207)
276 COG0237 CoaE Dephospho-CoA kin  94.8   0.025 6.3E-07   35.5   3.0   24    1-24      1-24  (201)
277 TIGR01277 thiQ thiamine ABC tr  94.8   0.035   9E-07   34.4   3.8   35    4-50     26-60  (213)
278 cd03228 ABCC_MRP_Like The MRP   94.8   0.029 7.3E-07   35.1   3.3   34    4-49     30-63  (171)
279 cd03289 ABCC_CFTR2 The CFTR su  94.8   0.029 7.3E-07   35.1   3.3   23    3-25     31-53  (275)
280 cd03268 ABC_BcrA_bacitracin_re  94.8   0.033 8.5E-07   34.6   3.6   33    5-49     29-61  (208)
281 COG1618 Predicted nucleotide k  94.8   0.025 6.4E-07   35.5   2.9   56    1-75      4-59  (179)
282 cd03251 ABCC_MsbA MsbA is an e  94.7   0.033 8.3E-07   34.7   3.4   34    4-49     30-63  (234)
283 cd03257 ABC_NikE_OppD_transpor  94.7   0.048 1.2E-06   33.5   4.2   33    4-48     33-65  (228)
284 PRK10522 multidrug transporter  94.7   0.033 8.5E-07   34.6   3.4   11   87-97     75-85  (547)
285 cd03291 ABCC_CFTR1 The CFTR su  94.7   0.032 8.2E-07   34.7   3.3   32    4-47     65-96  (282)
286 COG2274 SunT ABC-type bacterio  94.7   0.035 8.9E-07   34.5   3.5   22    4-25    501-522 (709)
287 cd03250 ABCC_MRP_domain1 Domai  94.7   0.065 1.7E-06   32.7   4.8   22    4-25     33-54  (204)
288 PTZ00141 elongation factor 1 a  94.7    0.12   3E-06   30.9   6.1   82    2-110     7-121 (443)
289 PRK10790 putative multidrug tr  94.6   0.035   9E-07   34.5   3.3   19    5-23    370-388 (593)
290 TIGR02211 LolD_lipo_ex lipopro  94.6   0.043 1.1E-06   33.9   3.8   41    5-57     34-74  (221)
291 cd03253 ABCC_ATM1_transporter   94.6   0.035   9E-07   34.4   3.2   34    4-49     29-62  (236)
292 PRK09435 arginine/ornithine tr  94.5   0.029 7.3E-07   35.1   2.7   23    2-24     49-71  (325)
293 cd03254 ABCC_Glucan_exporter_l  94.5   0.038 9.7E-07   34.2   3.3   36    2-49     29-64  (229)
294 PRK11147 ABC transporter ATPas  94.5   0.037 9.5E-07   34.3   3.2   25    4-28     31-55  (632)
295 PRK10789 putative multidrug tr  94.5   0.033 8.4E-07   34.6   2.9   20    5-24    344-363 (569)
296 PRK13638 cbiO cobalt transport  94.5   0.038 9.6E-07   34.3   3.1   31    5-47     30-60  (271)
297 cd03244 ABCC_MRP_domain2 Domai  94.4   0.042 1.1E-06   33.9   3.4   34    4-49     32-65  (221)
298 PRK13546 teichoic acids export  94.4   0.038 9.8E-07   34.2   3.2   32    4-47     52-83  (264)
299 KOG0468 consensus               94.4    0.25 6.4E-06   28.7   7.3   88    4-110   130-233 (971)
300 cd03288 ABCC_SUR2 The SUR doma  94.4   0.043 1.1E-06   33.9   3.3   35    4-50     49-83  (257)
301 cd03248 ABCC_TAP TAP, the Tran  94.4   0.043 1.1E-06   33.9   3.3   34    4-49     42-75  (226)
302 PRK11160 cysteine/glutathione   94.3   0.047 1.2E-06   33.6   3.4   14  315-328   363-376 (575)
303 cd03217 ABC_FeS_Assembly ABC-t  94.3   0.057 1.5E-06   33.0   3.8   36    4-49     28-63  (200)
304 KOG0462 consensus               94.2   0.087 2.2E-06   31.8   4.6  114    5-134    63-202 (650)
305 PRK13657 cyclic beta-1,2-gluca  94.2   0.052 1.3E-06   33.3   3.5   15  313-327   355-369 (585)
306 PRK11176 lipid transporter ATP  94.2   0.037 9.5E-07   34.3   2.7   21    4-24    370-390 (581)
307 PRK11701 phnK phosphonates tra  94.2   0.049 1.2E-06   33.5   3.3   22    4-25     34-55  (258)
308 CHL00071 tufA elongation facto  94.2    0.12 3.1E-06   30.8   5.4   89    3-109    13-110 (409)
309 PRK12317 elongation factor 1-a  94.2     0.3 7.5E-06   28.2   7.3   86    3-109     8-120 (426)
310 PRK11174 cysteine/glutathione   94.2   0.042 1.1E-06   34.0   2.9   18  311-328   368-385 (588)
311 PRK13641 cbiO cobalt transport  94.2   0.051 1.3E-06   33.4   3.4   33    4-48     35-67  (286)
312 KOG0394 consensus               94.2    0.22 5.7E-06   29.1   6.6  150    2-244     9-162 (210)
313 PRK13540 cytochrome c biogenes  94.2   0.051 1.3E-06   33.4   3.3   33    4-48     29-61  (200)
314 cd03224 ABC_TM1139_LivF_branch  94.1   0.051 1.3E-06   33.4   3.3   32    5-48     29-60  (222)
315 KOG0054 consensus               94.1   0.052 1.3E-06   33.3   3.3   42    2-48    547-588 (1381)
316 PRK11147 ABC transporter ATPas  94.1   0.069 1.8E-06   32.5   3.9   22    4-25    347-368 (632)
317 cd03296 ABC_CysA_sulfate_impor  94.1   0.049 1.3E-06   33.5   3.2   34    4-49     30-63  (239)
318 PRK10895 putative ABC transpor  94.1   0.054 1.4E-06   33.2   3.3   33    5-49     32-64  (241)
319 cd03236 ABC_RNaseL_inhibitor_d  94.1    0.05 1.3E-06   33.4   3.1   22    5-26     29-50  (255)
320 cd03219 ABC_Mj1267_LivG_branch  94.1   0.053 1.3E-06   33.3   3.2   32    5-48     29-60  (236)
321 PRK10512 selenocysteinyl-tRNA-  94.1    0.34 8.6E-06   27.8   7.3   76    3-108     1-85  (615)
322 cd03246 ABCC_Protease_Secretio  94.0   0.063 1.6E-06   32.8   3.6   35    3-49     29-63  (173)
323 cd03266 ABC_NatA_sodium_export  94.0   0.054 1.4E-06   33.2   3.2   31    5-47     34-64  (218)
324 cd03297 ABC_ModC_molybdenum_tr  94.0   0.051 1.3E-06   33.4   3.1   33    5-49     26-58  (214)
325 cd03263 ABC_subfamily_A The AB  94.0   0.061 1.6E-06   32.8   3.4   32    5-48     31-62  (220)
326 cd03255 ABC_MJ0796_Lo1CDE_FtsE  94.0    0.05 1.3E-06   33.4   3.0   34    4-49     32-65  (218)
327 TIGR02857 CydD ABC transporter  93.9   0.079   2E-06   32.1   3.9   32    4-47    380-411 (570)
328 cd03234 ABCG_White The White s  93.9   0.044 1.1E-06   33.8   2.6   22    4-25     35-56  (226)
329 KOG0057 consensus               93.9   0.047 1.2E-06   33.6   2.7   20    4-23    380-399 (591)
330 PRK09544 znuC high-affinity zi  93.9   0.063 1.6E-06   32.7   3.3   23    4-26     32-54  (251)
331 PRK10247 putative ABC transpor  93.8   0.065 1.7E-06   32.7   3.4   33    4-48     35-67  (225)
332 cd03220 ABC_KpsT_Wzt ABC_KpsT_  93.8   0.063 1.6E-06   32.7   3.3   32    4-47     50-81  (224)
333 PRK12736 elongation factor Tu;  93.8    0.12 3.1E-06   30.8   4.7   78    3-109    13-110 (394)
334 PRK00081 coaE dephospho-CoA ki  93.8   0.056 1.4E-06   33.1   2.9   24    1-24      1-24  (199)
335 PRK13544 consensus              93.8   0.066 1.7E-06   32.6   3.3   33    4-48     29-61  (208)
336 cd03230 ABC_DR_subfamily_A Thi  93.8   0.066 1.7E-06   32.6   3.3   32    5-48     29-60  (173)
337 PRK09700 D-allose transporter   93.8   0.049 1.2E-06   33.5   2.6   33    5-49     34-66  (510)
338 cd03222 ABC_RNaseL_inhibitor T  93.7   0.073 1.9E-06   32.3   3.5   25    4-28     27-51  (177)
339 pfam04317 DUF463 YcjX-like fam  93.7    0.16 4.1E-06   30.0   5.2   33    3-36      1-36  (443)
340 cd03299 ABC_ModC_like Archeal   93.7   0.064 1.6E-06   32.7   3.1   34    4-49     27-60  (235)
341 PRK10771 thiQ thiamine transpo  93.7   0.065 1.7E-06   32.7   3.2   33    4-48     27-59  (233)
342 TIGR03411 urea_trans_UrtD urea  93.7   0.063 1.6E-06   32.7   3.1   32    5-48     31-62  (242)
343 PRK10584 putative ABC transpor  93.7   0.058 1.5E-06   33.0   2.9   34    4-49     38-71  (228)
344 COG5019 CDC3 Septin family pro  93.7    0.18 4.6E-06   29.7   5.4   61    2-77     23-92  (373)
345 PRK04004 translation initiatio  93.6    0.41 1.1E-05   27.3   7.2   88    5-108     8-104 (592)
346 PRK08356 hypothetical protein;  93.6   0.056 1.4E-06   33.1   2.7   23    2-24      5-27  (195)
347 PRK00007 elongation factor G;   93.6    0.26 6.6E-06   28.6   6.1   89    4-110    12-112 (693)
348 CHL00131 ycf16 sulfate ABC tra  93.6   0.054 1.4E-06   33.2   2.6   36    4-49     34-69  (252)
349 PRK13548 hmuV hemin importer A  93.6   0.072 1.8E-06   32.4   3.2   32    5-48     31-62  (257)
350 PTZ00327 eukaryotic translatio  93.6    0.35   9E-06   27.7   6.7   94    3-109    38-155 (460)
351 PRK11247 ssuB aliphatic sulfon  93.6   0.068 1.7E-06   32.5   3.1   24    4-27     40-63  (257)
352 PTZ00336 elongation factor 1-a  93.6     0.6 1.5E-05   26.1   7.9   82    2-110     7-121 (449)
353 cd03223 ABCD_peroxisomal_ALDP   93.6    0.08   2E-06   32.1   3.4   23    3-25     28-50  (166)
354 COG1131 CcmA ABC-type multidru  93.6    0.13 3.2E-06   30.7   4.4   33    5-49     34-66  (293)
355 PRK10636 putative ABC transpor  93.5   0.083 2.1E-06   32.0   3.5   20    5-24    341-360 (638)
356 cd03226 ABC_cobalt_CbiO_domain  93.5   0.078   2E-06   32.1   3.3   34    4-49     28-61  (205)
357 cd03237 ABC_RNaseL_inhibitor_d  93.5   0.069 1.8E-06   32.5   3.0   32    5-48     28-59  (246)
358 PRK10575 iron-hydroxamate tran  93.5   0.075 1.9E-06   32.2   3.2   23    4-26     39-61  (265)
359 cd03231 ABC_CcmA_heme_exporter  93.5   0.079   2E-06   32.1   3.3   34    4-49     28-61  (201)
360 cd03260 ABC_PstB_phosphate_tra  93.4    0.11 2.9E-06   31.0   4.0   39    4-49     28-66  (227)
361 KOG1249 consensus               93.4   0.052 1.3E-06   33.3   2.3   45    5-49    216-271 (572)
362 PRK10619 histidine/lysine/argi  93.4   0.079   2E-06   32.1   3.2   32    5-48     34-65  (257)
363 cd03225 ABC_cobalt_CbiO_domain  93.4    0.09 2.3E-06   31.7   3.5   33    5-49     30-62  (211)
364 PRK13542 consensus              93.4   0.081 2.1E-06   32.0   3.2   32    4-47     46-77  (224)
365 PRK13631 cbiO cobalt transport  93.3   0.088 2.2E-06   31.8   3.3   34    4-49     54-87  (320)
366 PRK11614 livF leucine/isoleuci  93.3   0.087 2.2E-06   31.8   3.3   34    4-49     33-66  (237)
367 cd03261 ABC_Org_Solvent_Resist  93.3   0.084 2.1E-06   31.9   3.2   32    4-47     28-59  (235)
368 TIGR03375 type_I_sec_LssB type  93.3    0.09 2.3E-06   31.7   3.3   13  315-327   487-499 (694)
369 cd03256 ABC_PhnC_transporter A  93.3   0.077   2E-06   32.2   3.0   33    5-49     30-62  (241)
370 PRK11308 dppF dipeptide transp  93.3     0.7 1.8E-05   25.7  11.1  173    4-246    43-217 (327)
371 TIGR02788 VirB11 P-type DNA tr  93.3   0.065 1.7E-06   32.7   2.6   21    5-25    161-181 (328)
372 cd03218 ABC_YhbG The ABC trans  93.2   0.088 2.3E-06   31.8   3.2   32    5-48     29-60  (232)
373 TIGR02546 III_secr_ATP type II  93.2   0.085 2.2E-06   31.9   3.1   27    2-28    153-179 (430)
374 PRK13644 cbiO cobalt transport  93.2   0.089 2.3E-06   31.8   3.2   33    4-48     30-62  (274)
375 cd03235 ABC_Metallic_Cations A  93.2   0.091 2.3E-06   31.7   3.3   33    4-48     27-59  (213)
376 cd03213 ABCG_EPDR ABCG transpo  93.2   0.067 1.7E-06   32.6   2.6   22    4-25     37-58  (194)
377 TIGR03410 urea_trans_UrtE urea  93.2   0.087 2.2E-06   31.8   3.2   33    5-49     29-61  (230)
378 TIGR03608 L_ocin_972_ABC putat  93.2   0.081 2.1E-06   32.0   3.0   33    4-48     26-58  (206)
379 PRK12739 elongation factor G;   93.2     0.3 7.6E-06   28.2   5.9   90    4-110    12-111 (693)
380 PRK13636 cbiO cobalt transport  93.2    0.09 2.3E-06   31.7   3.2   89  185-276   141-252 (285)
381 COG1136 SalX ABC-type antimicr  93.2   0.076 1.9E-06   32.2   2.8   23    5-27     34-56  (226)
382 PRK13648 cbiO cobalt transport  93.2    0.09 2.3E-06   31.7   3.2   34    4-49     37-70  (269)
383 TIGR02204 MsbA_rel ABC transpo  93.2   0.067 1.7E-06   32.6   2.5   32    4-47    368-399 (576)
384 PRK13538 cytochrome c biogenes  93.2   0.094 2.4E-06   31.6   3.3   33    4-48     29-61  (204)
385 PRK13639 cbiO cobalt transport  93.2    0.11 2.9E-06   31.0   3.7   33    4-48     30-62  (275)
386 PRK13547 hmuV hemin importer A  93.2   0.067 1.7E-06   32.6   2.5   23    4-26     29-51  (273)
387 PRK11629 lolD lipoprotein tran  93.1   0.092 2.3E-06   31.7   3.2   34    4-49     37-70  (233)
388 PRK07560 elongation factor EF-  93.1    0.47 1.2E-05   26.9   6.8   92    4-110    22-123 (730)
389 PRK11000 maltose/maltodextrin   93.1   0.099 2.5E-06   31.4   3.3   34    4-49     31-64  (369)
390 cd03247 ABCC_cytochrome_bd The  93.1   0.093 2.4E-06   31.6   3.2   35    3-49     29-63  (178)
391 cd03269 ABC_putative_ATPase Th  93.1   0.091 2.3E-06   31.7   3.1   33    5-49     29-61  (210)
392 COG1703 ArgK Putative periplas  93.1   0.075 1.9E-06   32.2   2.7   23    2-24     51-73  (323)
393 PRK11831 putative ABC transpor  93.1   0.094 2.4E-06   31.6   3.2   31    5-47     37-67  (269)
394 PTZ00243 ABC transporter; Prov  93.1   0.099 2.5E-06   31.4   3.3   20    5-24    689-708 (1560)
395 cd03216 ABC_Carb_Monos_I This   93.1     0.1 2.6E-06   31.3   3.3   32    5-48     29-60  (163)
396 PRK13632 cbiO cobalt transport  93.1   0.094 2.4E-06   31.6   3.1   34    4-49     38-71  (273)
397 cd03232 ABC_PDR_domain2 The pl  93.1   0.076 1.9E-06   32.2   2.7   21    4-24     35-55  (192)
398 cd03267 ABC_NatA_like Similar   93.0   0.091 2.3E-06   31.7   3.0   31    5-47     50-80  (236)
399 cd03265 ABC_DrrA DrrA is the A  93.0     0.1 2.5E-06   31.4   3.2   32    5-48     29-60  (220)
400 PRK13539 cytochrome c biogenes  93.0   0.099 2.5E-06   31.4   3.2   34    4-49     30-63  (206)
401 PRK13541 cytochrome c biogenes  93.0   0.097 2.5E-06   31.5   3.1   34    4-49     28-61  (195)
402 COG2019 AdkA Archaeal adenylat  93.0   0.076 1.9E-06   32.2   2.6   26    1-26      1-28  (189)
403 PRK13645 cbiO cobalt transport  93.0   0.096 2.4E-06   31.5   3.1   89  185-276   150-261 (289)
404 pfam03266 DUF265 Protein of un  93.0   0.075 1.9E-06   32.2   2.5   21    4-24      1-21  (168)
405 PRK11231 fecE iron-dicitrate t  93.0     0.1 2.5E-06   31.4   3.2   33    5-49     31-63  (255)
406 PRK13545 tagH teichoic acids e  93.0    0.15 3.7E-06   30.3   4.0   23    4-26     52-74  (549)
407 PRK10253 iron-enterobactin tra  93.0   0.084 2.1E-06   31.9   2.8   34    4-49     35-68  (265)
408 PRK09984 phosphonate/organopho  92.9   0.083 2.1E-06   31.9   2.7   23    4-26     32-54  (262)
409 PRK09580 sufC cysteine desulfu  92.9   0.085 2.2E-06   31.9   2.7   36    4-49     29-64  (248)
410 cd03264 ABC_drug_resistance_li  92.9   0.096 2.4E-06   31.5   2.9   34    4-49     27-60  (211)
411 PRK10938 putative molybdenum t  92.9    0.11 2.8E-06   31.1   3.3   22    4-25     31-52  (490)
412 cd03116 MobB Molybdenum is an   92.9   0.094 2.4E-06   31.6   2.9   20    5-24      4-23  (159)
413 PTZ00265 multidrug resistance   92.8    0.17 4.4E-06   29.8   4.2   24    3-26    412-435 (1467)
414 PRK11264 putative amino-acid A  92.8    0.11 2.9E-06   31.1   3.2   23    4-26     29-51  (248)
415 PRK10908 cell division protein  92.8   0.098 2.5E-06   31.5   3.0   33    4-48     30-62  (222)
416 cd00267 ABC_ATPase ABC (ATP-bi  92.8    0.11 2.8E-06   31.1   3.2   34    4-49     27-60  (157)
417 PRK13651 cobalt transporter AT  92.8    0.12   3E-06   30.9   3.3   32    4-47     35-66  (304)
418 PRK13652 cbiO cobalt transport  92.8   0.099 2.5E-06   31.4   2.9   34    4-49     32-65  (277)
419 PRK13635 cbiO cobalt transport  92.8    0.12   3E-06   30.9   3.3   33    4-48     35-67  (279)
420 PRK03695 vitamin B12-transport  92.8   0.083 2.1E-06   31.9   2.6   22    4-25     25-46  (245)
421 cd03300 ABC_PotA_N PotA is an   92.8    0.11 2.8E-06   31.1   3.2   33    5-49     29-61  (232)
422 PRK09493 glnQ glutamine ABC tr  92.8    0.11 2.7E-06   31.2   3.1   23    4-26     29-51  (240)
423 cd03214 ABC_Iron-Siderophores_  92.7    0.12   3E-06   30.9   3.3   34    4-49     27-60  (180)
424 KOG1489 consensus               92.7   0.079   2E-06   32.1   2.4   23  193-215   222-244 (366)
425 PRK11124 artP arginine transpo  92.7    0.12   3E-06   30.9   3.2   33    4-48     30-62  (242)
426 TIGR00991 3a0901s02IAP34 GTP-b  92.7    0.19 4.9E-06   29.5   4.3   87    2-106    39-128 (328)
427 TIGR00176 mobB molybdopterin-g  92.7   0.058 1.5E-06   33.0   1.7   35    5-41      2-36  (165)
428 PRK13637 cbiO cobalt transport  92.6   0.099 2.5E-06   31.4   2.8   93  185-277   144-256 (287)
429 COG4988 CydD ABC-type transpor  92.6    0.13 3.2E-06   30.7   3.3   24    4-27    349-372 (559)
430 PRK10218 GTP-binding protein;   92.6    0.86 2.2E-05   25.1   8.4   91    4-110     7-104 (607)
431 COG1120 FepC ABC-type cobalami  92.6    0.17 4.4E-06   29.8   3.9   38    5-54     31-68  (258)
432 PRK13409 putative ATPase RIL;   92.5     0.2 5.1E-06   29.4   4.2   27    3-29    100-126 (590)
433 pfam04735 Baculo_helicase Bacu  92.5   0.075 1.9E-06   32.3   2.0   17   72-89    151-167 (1173)
434 COG4987 CydC ABC-type transpor  92.5    0.14 3.5E-06   30.5   3.4   33    3-47    365-397 (573)
435 cd03233 ABC_PDR_domain1 The pl  92.5     0.1 2.6E-06   31.4   2.7   22    4-25     35-56  (202)
436 cd03215 ABC_Carb_Monos_II This  92.5    0.09 2.3E-06   31.7   2.4   32    5-48     29-60  (182)
437 PRK13633 cobalt transporter AT  92.4    0.14 3.6E-06   30.4   3.3   91  185-276   145-255 (281)
438 PRK13634 cbiO cobalt transport  92.4    0.11 2.9E-06   31.0   2.8   92  185-276   132-243 (276)
439 TIGR02315 ABC_phnC phosphonate  92.4    0.19 4.7E-06   29.6   3.9   37    5-50     31-73  (253)
440 cd03292 ABC_FtsE_transporter F  92.4    0.13 3.4E-06   30.6   3.1   33    5-49     30-62  (214)
441 PRK11153 metN DL-methionine tr  92.3    0.13 3.2E-06   30.7   3.0   31    5-47     34-64  (343)
442 TIGR00960 3a0501s02 Type II (G  92.2     0.1 2.7E-06   31.3   2.4   41    5-57     32-72  (216)
443 PRK09700 D-allose transporter   92.2    0.14 3.5E-06   30.4   3.1   21    5-25    292-312 (510)
444 cd03229 ABC_Class3 This class   92.2    0.14 3.5E-06   30.5   3.1   35    4-50     28-62  (178)
445 PRK13643 cbiO cobalt transport  92.2    0.14 3.6E-06   30.4   3.1   32    4-47     34-65  (288)
446 PRK10982 galactose/methyl gala  92.2    0.15 3.7E-06   30.3   3.2   22    4-25     26-47  (491)
447 PRK07261 topology modulation p  92.2    0.12 3.1E-06   30.9   2.7   79    3-104     1-85  (171)
448 cd03258 ABC_MetN_methionine_tr  92.2     0.1 2.6E-06   31.3   2.4   33    4-48     33-65  (233)
449 PRK13650 cbiO cobalt transport  92.1    0.15 3.8E-06   30.3   3.1   93  184-277   136-248 (276)
450 COG1122 CbiO ABC-type cobalt t  92.1    0.17 4.2E-06   29.9   3.4   24    4-27     32-55  (235)
451 PRK13543 cytochrome c biogenes  92.1    0.17 4.4E-06   29.8   3.4   32    4-47     39-70  (214)
452 PRK13640 cbiO cobalt transport  92.1    0.12 3.1E-06   30.9   2.7   87  185-275   144-253 (283)
453 PRK04040 adenylate kinase; Pro  92.1    0.13 3.4E-06   30.5   2.9   24    1-24      1-24  (189)
454 TIGR01271 CFTR_protein cystic   92.1    0.12   3E-06   30.9   2.6   25    3-27   1287-1311(1534)
455 PRK10851 sulfate/thiosulfate t  92.1    0.14 3.4E-06   30.5   2.9   32    5-48     31-62  (352)
456 COG1132 MdlB ABC-type multidru  92.0    0.16 4.2E-06   30.0   3.3   33    3-47    356-388 (567)
457 TIGR01184 ntrCD nitrate ABC tr  92.0    0.15 3.8E-06   30.2   3.1   23    5-27     14-36  (230)
458 PRK11288 araG L-arabinose tran  92.0    0.16   4E-06   30.1   3.1   22    4-25     32-53  (501)
459 COG0419 SbcC ATPase involved i  92.0    0.29 7.4E-06   28.3   4.5   22    5-27     28-49  (908)
460 cd03262 ABC_HisP_GlnQ_permease  92.0    0.16   4E-06   30.1   3.1   32    5-48     29-60  (213)
461 cd03295 ABC_OpuCA_Osmoprotecti  91.9    0.15 3.9E-06   30.2   3.0   33    4-48     29-61  (242)
462 COG1341 Predicted GTPase or GT  91.9    0.35   9E-06   27.7   4.9   93    4-107    75-210 (398)
463 KOG2655 consensus               91.9    0.26 6.6E-06   28.6   4.2   22    3-24     22-43  (366)
464 TIGR03522 GldA_ABC_ATP gliding  91.9    0.17 4.3E-06   29.9   3.2   32    5-48     31-62  (301)
465 PRK01184 hypothetical protein;  91.9    0.14 3.6E-06   30.4   2.8   22    3-24      2-23  (183)
466 PRK11288 araG L-arabinose tran  91.9    0.15 3.9E-06   30.2   3.0   20    5-24    282-301 (501)
467 PRK13642 cbiO cobalt transport  91.9    0.17 4.4E-06   29.8   3.2   92  184-276   139-250 (277)
468 PRK08118 topology modulation p  91.8    0.15 3.9E-06   30.2   2.9   81    1-104     1-85  (167)
469 COG0411 LivG ABC-type branched  91.8   0.035   9E-07   34.5  -0.4   31    5-47     33-63  (250)
470 COG1124 DppF ABC-type dipeptid  91.8    0.24 6.1E-06   28.9   3.9  161    4-244    35-202 (252)
471 cd03114 ArgK-like The function  91.8    0.12   3E-06   30.9   2.3   20    5-24      2-21  (148)
472 PRK10982 galactose/methyl gala  91.8    0.17 4.2E-06   29.9   3.1   21    5-25    277-297 (491)
473 PRK09270 frcK putative fructos  91.7    0.14 3.7E-06   30.3   2.7   22    3-24     35-56  (230)
474 PRK10744 phosphate transporter  91.6    0.14 3.6E-06   30.4   2.5   22    4-25     38-59  (257)
475 COG0703 AroK Shikimate kinase   91.6    0.19 4.8E-06   29.6   3.2   34    1-39      1-34  (172)
476 pfam05783 DLIC Dynein light in  91.5     1.1 2.9E-05   24.3  11.5   43  203-245   216-268 (490)
477 COG1121 ZnuC ABC-type Mn/Zn tr  91.5    0.33 8.4E-06   27.9   4.3   33    4-48     32-64  (254)
478 KOG0091 consensus               91.5    0.51 1.3E-05   26.6   5.3   81    3-109     9-93  (213)
479 TIGR03269 met_CoM_red_A2 methy  91.5    0.21 5.4E-06   29.2   3.3   22    4-25     28-49  (520)
480 COG0563 Adk Adenylate kinase a  91.4     0.2 5.1E-06   29.4   3.2   82    3-108     1-86  (178)
481 TIGR02324 CP_lyasePhnL phospho  91.4    0.17 4.3E-06   29.8   2.8   31    5-47     37-67  (224)
482 KOG0092 consensus               91.4    0.79   2E-05   25.3   6.2   83    3-108     6-88  (200)
483 cd03271 ABC_UvrA_II The excisi  91.4    0.16   4E-06   30.1   2.6   20    4-23     23-42  (261)
484 PRK10762 D-ribose transporter   91.4     0.2   5E-06   29.4   3.1   22    4-25     32-53  (501)
485 PRK11607 potG putrescine trans  91.4    0.18 4.6E-06   29.7   2.9   33    5-49     48-80  (377)
486 PRK10762 D-ribose transporter   91.4    0.16 4.2E-06   30.0   2.7   20    5-24    281-300 (501)
487 KOG0066 consensus               91.4    0.21 5.4E-06   29.2   3.3   36    4-48    292-327 (807)
488 PRK13537 lipooligosaccharide t  91.3    0.21 5.3E-06   29.3   3.2   32    5-48     34-65  (304)
489 PRK13647 cbiO cobalt transport  91.3     0.2 5.1E-06   29.4   3.1   34    4-49     33-66  (273)
490 PRK11144 modC molybdate transp  91.2    0.21 5.4E-06   29.2   3.1   33    5-49     27-59  (352)
491 COG3840 ThiQ ABC-type thiamine  91.2    0.23 5.8E-06   29.0   3.3   33    4-48     27-59  (231)
492 PRK03839 putative kinase; Prov  91.0     0.2 5.1E-06   29.4   2.8   22    3-24      1-22  (180)
493 PRK05703 flhF flagellar biosyn  91.0    0.49 1.2E-05   26.8   4.8   39  298-336   325-363 (412)
494 PRK09473 oppD oligopeptide tra  91.0    0.18 4.5E-06   29.8   2.5  178    4-245    44-223 (330)
495 PRK10070 glycine betaine trans  90.9    0.23 5.9E-06   28.9   3.1   32    5-48     57-88  (400)
496 PRK09452 potA putrescine/sperm  90.9    0.23 5.9E-06   29.0   3.0   33    5-49     46-78  (378)
497 PRK13649 cbiO cobalt transport  90.8    0.24 6.1E-06   28.8   3.1   34    4-49     35-68  (280)
498 KOG1707 consensus               90.8     1.3 3.4E-05   23.8   6.9   88    2-116     9-98  (625)
499 PRK13536 nodulation factor exp  90.8    0.25 6.5E-06   28.7   3.2   28    5-32     36-63  (306)
500 PRK13549 xylose transporter AT  90.8    0.19 4.9E-06   29.5   2.6   20    5-24     34-53  (513)

No 1  
>PRK09601 translation-associated GTPase; Reviewed
Probab=100.00  E-value=0  Score=965.80  Aligned_cols=364  Identities=63%  Similarity=1.025  Sum_probs=355.9

Q ss_pred             CCCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCC
Q ss_conf             98248675288878889999874048987366686744883379976855587776421865023357999851223543
Q gi|254780226|r    1 MGFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRG   80 (367)
Q Consensus         1 m~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~g   80 (367)
                      |+|||||||+|||||||||||||+ +.++++|||||||+||+|+++|||+|+++|+++++|+|++||+|+++||||||||
T Consensus         1 m~mkiGivGlPnvGKSTlFnalT~-~~~~~~nyPf~Ti~pn~g~v~VpD~r~~~l~~~~~p~k~i~a~v~~vDiaGLv~g   79 (364)
T PRK09601          1 MGLKCGIVGLPNVGKSTLFNALTK-AGAEAANYPFCTIEPNVGIVPVPDPRLDKLAEIVKPKKIVPTTIEFVDIAGLVKG   79 (364)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHC-CCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHHCCCCEEEEEEEEEECCCCCCC
T ss_conf             982488877999988999999967-9986458998887880068857854589998762876501125899965776787


Q ss_pred             CCCCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHH
Q ss_conf             22246632899998730374788501234542113457767321578898888764332224577777875203204677
Q gi|254780226|r   81 ASKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIV  160 (367)
Q Consensus        81 A~~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~  160 (367)
                      ||+|+|||||||+|||+|||||||||||+|++++|++|++||++|+++|+.||++||+++++|+|+|..|..+.+++...
T Consensus        80 As~G~GLGN~FL~~iR~~DaiihVVr~F~d~~i~hv~G~vDP~rDie~I~~EL~l~Dl~~vek~~~rl~k~~k~~~k~~~  159 (364)
T PRK09601         80 ASKGEGLGNKFLANIREVDAIVHVVRCFEDDNITHVEGKVDPIRDIETINTELILADLESVEKRLERLEKKAKSGDKEAK  159 (364)
T ss_pred             CCCCCCCHHHHHHHHHHCCEEEEEEECCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHH
T ss_conf             53467742899998873475677500026875468999969788999999999999999999999999755313244579


Q ss_pred             HHHHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCC
Q ss_conf             78999998899887587410344313267776210235764101001003430111010134678778864369840332
Q gi|254780226|r  161 LLQSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIII  240 (367)
Q Consensus       161 ~~~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~i  240 (367)
                      .+..++++++++|++++|+|..  +|+++++.++++++|+|+|||+|++|++|.+...+|.+.+++++++.+++..++++
T Consensus       160 ~e~~~L~k~~~~Le~~~~lr~~--~~~~ee~~~i~~~~lLT~KP~i~v~Nv~e~d~~~~n~~~~~l~~~~~~~~~~vi~~  237 (364)
T PRK09601        160 AELELLEKLLEHLEEGKPARSL--ELTEEEKKLLKGLQLLTAKPVLYVANVDEDDLADGNPYVDKVREIAAKEGAEVVVI  237 (364)
T ss_pred             HHHHHHHHHHHHHHCCCCHHHC--CCCHHHHHHHHHHHHHHCCCEEEEEECCHHHHCCCCHHHHHHHHHHHHCCCEEEEE
T ss_conf             9999999999998679966650--47888999999865653387599987686551125589999999998769918986


Q ss_pred             CCHHHHHHHHCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCEEEECCCCCCCCCEECCCCCCHHHHHHCCCCHHCCCC
Q ss_conf             10024665528842677887753887422899999999872964661057875454012786767785110012103483
Q gi|254780226|r  241 SAAIEAEISQLPEEERALFMEELDISISGLELLIRSGYRLLDLITYFTVGPKETRAWTIPRGTNAQKAAGVIHTDFEKGF  320 (367)
Q Consensus       241 sa~~E~ei~~l~~ee~~e~l~~~~l~~tgl~~li~~~~~lL~li~~~tvg~~e~~aw~i~~GstA~d~A~~IHtDi~kgF  320 (367)
                      ||++|.||++|+++|+.+||+++|++++|++++|+++|++|+||+||||||+|+||||||+||||+||||+|||||+|||
T Consensus       238 sa~~E~El~~l~~ee~~efl~~~gi~es~l~~iI~~~y~lL~Li~ffT~G~dE~rAWti~kGstA~~aAg~IHsD~~kgF  317 (364)
T PRK09601        238 CAKIEAELAELDDEEKAEFLEELGLEESGLDRLIRAGYDLLGLITYFTAGPKEVRAWTIKKGTTAPQAAGVIHTDFEKGF  317 (364)
T ss_pred             EHHHHHHHHHCCHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCEEEECCCCCCEEEEECCCCCCHHHHHHHHHHHHHHCC
T ss_conf             34444666536998999999983887326899999999974976996258871023554799947998032010575294


Q ss_pred             EEEEECCHHHHHHCCCHHHHHHCCCEECCCCEEEECCCCEEEEECCC
Q ss_conf             69997368887744996888874965315760796549889996379
Q gi|254780226|r  321 IRALTISYKDYVAMGGENAAKEAGKARDEGKEYIVKDGDILHFRFNV  367 (367)
Q Consensus       321 i~A~v~~~~~~~~~~~~~~~k~~g~~r~~Gkdy~v~DGDVi~~~fnv  367 (367)
                      |||+|++|+|++++|||++||++||+|+|||||+|+|||||||||||
T Consensus       318 IrAev~~~~d~i~~gs~~~~k~~Gk~r~eGKdYiv~DGDii~f~fnv  364 (364)
T PRK09601        318 IRAEVISYDDLIAYGSEAGAKEAGKLRLEGKEYIVQDGDVMHFRFNV  364 (364)
T ss_pred             EEEEEECHHHHHHCCCHHHHHHCCCCCCCCCCEEEECCCEEEEECCC
T ss_conf             79998149999881999999874870313882387269789996479


No 2  
>PTZ00258 GTP-binding protein; Provisional
Probab=100.00  E-value=0  Score=959.58  Aligned_cols=364  Identities=49%  Similarity=0.837  Sum_probs=344.9

Q ss_pred             CCCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCC
Q ss_conf             98248675288878889999874048987366686744883379976855587776421865023357999851223543
Q gi|254780226|r    1 MGFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRG   80 (367)
Q Consensus         1 m~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~g   80 (367)
                      +.||||||||||||||||||||| ++.+++||||||||+||+|+++|||+|+++||+|++|+|++|++|+|+||||||||
T Consensus        21 ~~m~iGivGlPNvGKSTlFnAlT-~~~v~~aNyPF~TIepN~gvv~VpD~Rl~~l~~~~~~kk~ipa~ve~vDIAGLV~G   99 (392)
T PTZ00258         21 NNLKMGIVGLPNVGKSTTFNALS-KQQVPAENFPFCTIDPNTARVPVPDERFDKLCQFFKPKSIVPATLDIVDIAGLVKG   99 (392)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHH-CCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHHCCCCCEEEEEEEEECCCCCCC
T ss_conf             78556786699997899999987-79974248998887783279967845688998751877610146899973455787


Q ss_pred             CCCCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-HHHH
Q ss_conf             222466328999987303747885012345421134577673215788988887643322245777778752032-0467
Q gi|254780226|r   81 ASKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHK-SEEI  159 (367)
Q Consensus        81 A~~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~-~~~~  159 (367)
                      ||+|+|||||||+|||+|||||||||||+|++++|++|++||++|+++|++||+|||+++++|+|+|..|..+.+ ++..
T Consensus       100 As~G~GLGNkFL~~iR~~DaiihVVR~F~d~~I~hv~g~vDPv~Die~I~~ELilaDl~~vekr~~rl~k~~~~~~~k~~  179 (392)
T PTZ00258        100 ASKGEGLGNAFLSHIRACDGIYHVVRAFEDEEITHVEGEVDPIRDLEIISSELVLKDLEFVEKLLDKLTKVINRGKDKSK  179 (392)
T ss_pred             CCCCCCCHHHHHHHHHHCCHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHH
T ss_conf             30268851899999884007999998724577778899979799999999999998899999999998867614645768


Q ss_pred             HHHHHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHH-CCCHHHHHHHHHHHHHC-CCCC
Q ss_conf             778999998899887587410344313267776210235764101001003430111-01013467877886436-9840
Q gi|254780226|r  160 VLLQSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDC-KKGNIYTEAVQRLASQQ-NAEM  237 (367)
Q Consensus       160 ~~~~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~-~~~n~~~e~i~~l~~~~-~~~~  237 (367)
                      ..+.+++.++.++|++++|+|..  .|+++++.++++++|+|+|||+||+|++|.+. ..+|.+.+++.++..++ +..+
T Consensus       180 ~~~~~~l~k~~~~L~~g~~~~~~--~~~~ee~~~l~~~~llT~KP~lyvaNv~E~~~~~~~n~~~~~l~~~~~~~~~~~~  257 (392)
T PTZ00258        180 KEELDVLKKVKELLEEGKWVRDG--KWTDKEIEFLNEYQLLTAKPMIYLVNMSEKDFVRQKNKWLAKIKEWVDENRPGPI  257 (392)
T ss_pred             HHHHHHHHHHHHHHHCCCCHHHC--CCCHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHCCHHHHHHHHHHHHHCCCCE
T ss_conf             99999999999999879932003--1577899999997887517828999868666432025899999999986389839


Q ss_pred             CCCCCHHHHHHHHCC-CHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCEEEECCCCCCCCCEECCCCCCHHHHHHCCCCHH
Q ss_conf             332100246655288-4267788775388742289999999987296466105787545401278676778511001210
Q gi|254780226|r  238 IIISAAIEAEISQLP-EEERALFMEELDISISGLELLIRSGYRLLDLITYFTVGPKETRAWTIPRGTNAQKAAGVIHTDF  316 (367)
Q Consensus       238 i~isa~~E~ei~~l~-~ee~~e~l~~~~l~~tgl~~li~~~~~lL~li~~~tvg~~e~~aw~i~~GstA~d~A~~IHtDi  316 (367)
                      +++||++|.+|++|+ +|++.+||+++++++||++++|+++|++||||+||||||+|+||||+++||||+||||+|||||
T Consensus       258 I~isA~~E~eL~~l~~~ee~~~fl~~~gl~~sgl~~li~~~y~lL~LitffTvG~dE~rAWtikkGstA~eaAg~IHTDf  337 (392)
T PTZ00258        258 IPVSAELEEQLAQLSSEEERLAFLKEYGIDQSMLDKIIKTGYKLLNLIHFFTAGPDEVRCWTIRKGTKAPQAAGVIHSDF  337 (392)
T ss_pred             EEEECHHHHHHHHCCCHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCEEEECCCCCCEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             99630637887633868999999998467764789999999998198689816887000466478993799866655566


Q ss_pred             CCCCEEEEECCHHHHHHCCCHHHHHHCCCEECCCCEEEECCCCEEEEECCC
Q ss_conf             348369997368887744996888874965315760796549889996379
Q gi|254780226|r  317 EKGFIRALTISYKDYVAMGGENAAKEAGKARDEGKEYIVKDGDILHFRFNV  367 (367)
Q Consensus       317 ~kgFi~A~v~~~~~~~~~~~~~~~k~~g~~r~~Gkdy~v~DGDVi~~~fnv  367 (367)
                      +||||||+|++|+||+++||+++||++||+|+|||||+|||||||||||||
T Consensus       338 ~kGFIrAevi~~~d~i~~g~~~~ak~~Gk~R~eGKdYiv~DGDVi~f~fnV  388 (392)
T PTZ00258        338 EKGFICAEVMAYDDFVELGSEAAAKAEGKYRQEGKNYVVQDGDIIFFKFNV  388 (392)
T ss_pred             HCCCEEEEEECHHHHHHCCCHHHHHHCCCEEECCCCEEEECCCEEEEEEEC
T ss_conf             308478998439999872989999874883403883386269789999726


No 3  
>TIGR00092 TIGR00092 GTP-binding protein YchF; InterPro: IPR004396 This is a family of conserved hypothetical proteins found in both prokaryotes and eukaryotes. While the function of these proteins is not known, the crystal structure of P44681 from SWISSPROT from Haemophilus influenzae has been determined . This protein consists of three domains: an N-terminal domain which has a mononucleotide binding fold typical for the P-loop NTPases, a central domain which forms an alpha-helical coiled coil, and a C-terminal domain composed of a six-stranded half-barrel curved around an alpha helix. The central and C-terminal domains are topologically similar to RNA-binding proteins, while the N-terminal region contains the features typical of GTP-dependent molecular switches. The purified protein was capable of binding both double-stranded nucleic acid and GTP. It was suggested, therefore, that this protein might be part of a nucleoprotein complex and could function as a GTP-dependent translation factor.; GO: 0005525 GTP binding.
Probab=100.00  E-value=0  Score=931.48  Aligned_cols=367  Identities=57%  Similarity=0.905  Sum_probs=354.9

Q ss_pred             CCCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEE-EEEEEEEEECCCCCC
Q ss_conf             9824867528887888999987404898736668674488337997685558777642186502-335799985122354
Q gi|254780226|r    1 MGFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDL-VPTRMSFVDIAGLVR   79 (367)
Q Consensus         1 m~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~-~p~~i~~iDvaGLv~   79 (367)
                      |.+++||||||||||||||||+|.++.+++|||||||||||.|+|.|||+|+|+|+++++|.|. +|++++|+||||||+
T Consensus         1 Mnl~aGIVGLpNVGKSTlF~AiT~~~~ge~ANYPFaTIePn~g~V~vpd~RLd~La~i~k~~k~evptt~~fvDIAGLvk   80 (390)
T TIGR00092         1 MNLKAGIVGLPNVGKSTLFNAITNLQLGEAANYPFATIEPNTGVVNVPDPRLDKLAEIYKPEKVEVPTTLEFVDIAGLVK   80 (390)
T ss_pred             CCCCCCCEECCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCCEEECCCCCHHHHHHHHCCCEEECCEEEEEEEECCCCC
T ss_conf             98876530068760557999998266777668887651676444625885333477640642041140489986223410


Q ss_pred             CCCCCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHH
Q ss_conf             322246632899998730374788501234542113457767321578898888764332224-------5777778752
Q gi|254780226|r   80 GASKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLE-------RLFEKNKKYR  152 (367)
Q Consensus        80 gA~~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~le-------k~~~k~~k~~  152 (367)
                      |||+|+|||||||+|||++|+|+||||||.|++|+||+|++||++|+++|+.||+++|++.++       +++.|.+|..
T Consensus        81 GAS~GeGLGN~FLanIReVd~I~hVVRCF~d~~I~HV~G~VDPV~D~evI~~EL~LaDle~~~~~~E~~~~~i~~~~k~a  160 (390)
T TIGR00092        81 GASKGEGLGNQFLANIREVDAICHVVRCFEDDDIIHVEGKVDPVRDLEVINNELILADLEFVEKILERLEKRIGKVKKKA  160 (390)
T ss_pred             CCCCCCCCHHHHHHCCCCCCCCEEEEEEEECCCEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf             00157872334431032033104788633077358851751762326888888888889999999999999999740423


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCC-CHHHHHHHHHHHH
Q ss_conf             032046777899999889988758741034431326777621023576410100100343011101-0134678778864
Q gi|254780226|r  153 NHKSEEIVLLQSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKK-GNIYTEAVQRLAS  231 (367)
Q Consensus       153 ~~~~~~~~~~~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~-~n~~~e~i~~l~~  231 (367)
                      +.+++..+.+..+|++++.+|+++.+++.....|+.+|.+.+++++|||+||+||++|++|.|+.+ .|.|...+.+++.
T Consensus       161 ~~~DK~~K~E~~lL~~~~~~L~~g~~~~~~~dhl~~~E~~~iks~~lLT~KP~l~~~NVsE~D~~~~~N~~~~~~~e~~~  240 (390)
T TIGR00092       161 KEGDKEAKEELALLEKILEGLENGQMVRHVGDHLTEEELKIIKSLNLLTAKPILYLANVSEDDLVNLDNKYLLRVKEIAA  240 (390)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHCCCCEEECCCCCCHHHHHHHHHHCCHHHHHHHEEECCCHHCCCCCCCHHHHHHHHHHH
T ss_conf             10037788889999999999863884331023458889999986221210014054316811003678837899999997


Q ss_pred             --HCCCCCCCCCCHHHHHHHHCCCHHHHHHHHHCC-------CCCC-CHHHHHHHHHHHCCCEEEECCCCCCCCCEECCC
Q ss_conf             --369840332100246655288426778877538-------8742-289999999987296466105787545401278
Q gi|254780226|r  232 --QQNAEMIIISAAIEAEISQLPEEERALFMEELD-------ISIS-GLELLIRSGYRLLDLITYFTVGPKETRAWTIPR  301 (367)
Q Consensus       232 --~~~~~~i~isa~~E~ei~~l~~ee~~e~l~~~~-------l~~t-gl~~li~~~~~lL~li~~~tvg~~e~~aw~i~~  301 (367)
                        +.+..++++||.+|.+|++|+.+++.+|+++++       ++.. ||+++|+++|++|+|+||||+||+|+|||||++
T Consensus       241 ~~~~~~~~~~vsa~~E~~L~eL~~~~~~~f~~~lgdtnvsdql~~~sgL~~~I~~~y~~LnL~sfFT~G~~EVRaWti~~  320 (390)
T TIGR00092       241 KQKPGDKVIPVSAALESELSELDDEERQDFLKELGDTNVSDQLQEVSGLNRVIRAMYKLLNLISFFTCGPQEVRAWTIRK  320 (390)
T ss_pred             HCCCCCEEEEEEHHHHHHHHCCCCCHHHHHHHHCCCCCCHHHHHCCHHHHHHHHHHHHHHCCEEEECCCCCHHEECCHHH
T ss_conf             23899728886687888874388642479998605664024331010015899999998287243316861012014020


Q ss_pred             CCCHHHHHHCCCCHHCCCCEEEEECCHHHHHHCC---CHHHHHHCCCEECCCCEEEECCCCEEEEECC-C
Q ss_conf             6767785110012103483699973688877449---9688887496531576079654988999637-9
Q gi|254780226|r  302 GTNAQKAAGVIHTDFEKGFIRALTISYKDYVAMG---GENAAKEAGKARDEGKEYIVKDGDILHFRFN-V  367 (367)
Q Consensus       302 GstA~d~A~~IHtDi~kgFi~A~v~~~~~~~~~~---~~~~~k~~g~~r~~Gkdy~v~DGDVi~~~fn-v  367 (367)
                      |+|||+|||+|||||.||||+|+|++|+|+++++   |+.+||++|++|.+||||+|+||||++|||| |
T Consensus       321 G~~APqAAG~IH~Dfe~gFI~aevi~yedl~~~~PPl~~~~aK~~Gl~r~~GK~Y~v~dgDv~~F~~~~~  390 (390)
T TIGR00092       321 GTTAPQAAGVIHTDFEKGFIRAEVISYEDLIEMKPPLSEQGAKEAGLIRLEGKDYIVQDGDVLLFRFNAV  390 (390)
T ss_pred             CCCHHHHHHHHHHHHHCCCEEEEEEEEHHHHHCCCCCCHHHHHHHHHHHHHCCCEEECCCCEEEEEECCC
T ss_conf             4751467745301532387368986301233228898857886721355615630311640111220269


No 4  
>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]
Probab=100.00  E-value=0  Score=860.90  Aligned_cols=366  Identities=58%  Similarity=0.906  Sum_probs=354.3

Q ss_pred             CCCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCC-CCEEEEEEEEEEECCCCCC
Q ss_conf             982486752888788899998740489873666867448833799768555877764218-6502335799985122354
Q gi|254780226|r    1 MGFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAE-SKDLVPTRMSFVDIAGLVR   79 (367)
Q Consensus         1 m~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~-~~~~~p~~i~~iDvaGLv~   79 (367)
                      |+++|||||||||||||||||||. +.+++|||||||||||+|+++|||+|+..|+++++ |+|.+|+.++|+|||||||
T Consensus         1 m~l~~GIVGlPNVGKSTlFnAlT~-~~a~~aNYPF~TIePN~Giv~v~d~rl~~L~~~~~c~~k~~~~~ve~vDIAGLV~   79 (372)
T COG0012           1 MSLKIGIVGLPNVGKSTLFNALTK-AGAEIANYPFCTIEPNVGVVYVPDCRLDELAEIVKCPPKIRPAPVEFVDIAGLVK   79 (372)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHC-CCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCCCEEEEEEEEEEECCCCC
T ss_conf             984267741898858889999974-8964248985426577327964736789998753899747761048998245378


Q ss_pred             CCCCCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC---H
Q ss_conf             3222466328999987303747885012345421134577673215788988887643322245777778752032---0
Q gi|254780226|r   80 GASKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHK---S  156 (367)
Q Consensus        80 gA~~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~---~  156 (367)
                      |||+|+|||||||+|||++|||+||||||+++|++|++|++||++||++|+.||++||+++++|+|+|..|..+.+   +
T Consensus        80 GAs~GeGLGNkFL~~IRevdaI~hVVr~f~d~di~hv~~~vDP~~DIe~I~~EL~l~d~~~lek~~~k~~k~a~~~~~~~  159 (372)
T COG0012          80 GASKGEGLGNKFLDNIREVDAIIHVVRCFGDTDIEHVEGKVDPVEDIEIINTELILWDLESLEKRWERLEKRAKAGKKLD  159 (372)
T ss_pred             CCCCCCCCCHHHHHHHHHCCEEEEEEEECCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHH
T ss_conf             85468886478787655148589999853898654787883927779999999999999999999999998875066237


Q ss_pred             HHHHHHHHHHHHHHHHHHCCCCCHH-HHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCC
Q ss_conf             4677789999988998875874103-443132677762102357641010010034301110101346787788643698
Q gi|254780226|r  157 EEIVLLQSIISSSLRLIEEGKPVRS-LLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNA  235 (367)
Q Consensus       157 ~~~~~~~~~l~~~~~~Le~~~~~r~-~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~  235 (367)
                      +....+.+.+.....+|+++.+.+. ....|+++++..+++++|+|.|||+|++|++|.+.++.|.+.+++++++...++
T Consensus       160 k~~~~~l~~l~~~~~~l~~~~~~~~~~~~~~~~e~~~~l~~l~llt~KP~lyvaN~~e~~~~~~n~~~~~i~~~~~~~~~  239 (372)
T COG0012         160 KELKEELSLLGKLEEHLEEGKPARGLDLSKWSEEDLEALASLNLLTAKPMLYVANVSEDDLANLNEYVKRLKELAAKENA  239 (372)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHCCC
T ss_conf             99999999888789999820022027744589999999887656404986999977765431116999999997665089


Q ss_pred             CCCCCCCHHHHHHHHCCC-HHHHHHHHHCCCCCCCHHHHHHHHHHHCCCEEEECCCCCCCCCEECCCCCCHHHHHHCCCC
Q ss_conf             403321002466552884-2677887753887422899999999872964661057875454012786767785110012
Q gi|254780226|r  236 EMIIISAAIEAEISQLPE-EERALFMEELDISISGLELLIRSGYRLLDLITYFTVGPKETRAWTIPRGTNAQKAAGVIHT  314 (367)
Q Consensus       236 ~~i~isa~~E~ei~~l~~-ee~~e~l~~~~l~~tgl~~li~~~~~lL~li~~~tvg~~e~~aw~i~~GstA~d~A~~IHt  314 (367)
                      +++++||++|.+|+.+++ +++.+|+..+++.++|++++++++|.+|||++|||+|++|.||||+++|+||+|+||.|||
T Consensus       240 ~vv~~sA~~E~eL~~l~~~~e~~~F~~~~g~~~~~l~~~i~~~y~~lgl~~~ft~g~~evrawti~~g~kap~aaG~Ih~  319 (372)
T COG0012         240 EVVPVSAAIELELRELADAEEKGEFLIELGQKESGLNELIRAGYGLLGLQTYFTAGVKEVRAWTIKDGSKAPDAAGVIHP  319 (372)
T ss_pred             CEEEEEHHHHHHHHHCCCCCCHHHHHHHCCCCHHHHHHHHHHHHCCCCHHHHHHHCCCEEEEEEECCCCCCCCCCCCCCC
T ss_conf             59994189999998574632235687743844667889999874655577897326875999984368853454776040


Q ss_pred             HHCCCCEEEEECCHHHHHHCCCHHHHHHCCCEECCCCEEEECCCCEEEEECCC
Q ss_conf             10348369997368887744996888874965315760796549889996379
Q gi|254780226|r  315 DFEKGFIRALTISYKDYVAMGGENAAKEAGKARDEGKEYIVKDGDILHFRFNV  367 (367)
Q Consensus       315 Di~kgFi~A~v~~~~~~~~~~~~~~~k~~g~~r~~Gkdy~v~DGDVi~~~fnv  367 (367)
                      ||.+|||+|++++|.|+++++|+..||++|++|++||||+|||||||||||||
T Consensus       320 Dfe~~fi~aevi~~~d~i~~~~~~~Akeag~~r~~GkdY~vqdGDVi~Fk~~~  372 (372)
T COG0012         320 DFEKGFIRAEVISYADLIHYGGEAAAKEAGKRRLEGKDYIVQDGDVIHFKFNV  372 (372)
T ss_pred             CHHHCCCCCEEEEHHHHHHCCCHHHHHHHCCEEECCCCCEECCCCEEEEEECC
T ss_conf             53222455567649999862748999882620121664261479789998249


No 5  
>KOG1491 consensus
Probab=100.00  E-value=0  Score=758.26  Aligned_cols=365  Identities=48%  Similarity=0.768  Sum_probs=341.7

Q ss_pred             CCCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCC
Q ss_conf             98248675288878889999874048987366686744883379976855587776421865023357999851223543
Q gi|254780226|r    1 MGFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRG   80 (367)
Q Consensus         1 m~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~g   80 (367)
                      |.+|+||||+|||||||||||+|. +.+..+||||||||||.+.|.|||.|++.||..|+|+..+||.++++||||||||
T Consensus        19 ~~lkiGIVGlPNvGKST~fnalT~-~~a~~~NfPF~TIdPn~a~V~v~d~Rfd~l~~~Y~~~~~vpa~l~v~DIAGLvkG   97 (391)
T KOG1491          19 NNLKIGIVGLPNVGKSTFFNALTK-SKAGAANFPFCTIDPNEARVEVPDSRFDLLCPIYGPKSKVPAFLTVYDIAGLVKG   97 (391)
T ss_pred             CCCEEEEEECCCCCHHHHHHHHHC-CCCCCCCCCCCEECCCCCEEECCCHHHHHHHHHCCCCCEEEEEEEEEEECCCCCC
T ss_conf             764025751798746889999860-7988567874025634112226825889998852876612335789862123567


Q ss_pred             CCCCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHH---
Q ss_conf             22246632899998730374788501234542113457767321578898888764332224577777875203204---
Q gi|254780226|r   81 ASKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSE---  157 (367)
Q Consensus        81 A~~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~---  157 (367)
                      ||+|+||||+||+|||.||+|+||||||++++++|++|.+||++|+++|..||.+||++.++++|+++.|..+....   
T Consensus        98 As~G~GLGN~FLs~iR~vDaifhVVr~f~d~di~hve~~vDPvrDieii~~EL~lkd~e~l~k~~e~~~k~~~~~~~~~~  177 (391)
T KOG1491          98 ASAGEGLGNKFLSHIRHVDAIFHVVRAFEDTDIIHVEGGVDPVRDIEIIQEELRLKDLEFLEKRLEKLEKKHKRTKSNLE  177 (391)
T ss_pred             CCCCCCCHHHHHHHHHHCCCEEEEEEECCCCCCEECCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHH
T ss_conf             64576740777776552031168887417653000058888225289999999996888888888777666532567677


Q ss_pred             --HHHHHHHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHC-CCHHHHHHHHHHHHHC-
Q ss_conf             --677789999988998875874103443132677762102357641010010034301110-1013467877886436-
Q gi|254780226|r  158 --EIVLLQSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCK-KGNIYTEAVQRLASQQ-  233 (367)
Q Consensus       158 --~~~~~~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~-~~n~~~e~i~~l~~~~-  233 (367)
                        ..+.+..++.++++.|.+++........|+++++..+++++++|+||++|++|++|.|.. ++|.+...+++|..+. 
T Consensus       178 ~~q~k~e~~~l~~v~~~ll~~kk~~~~~~~W~d~eieiln~~~lLt~kP~Vyl~N~se~dy~r~knk~l~~i~~w~~~~~  257 (391)
T KOG1491         178 TKQLKFEYGLLEKVKEKLLDGKKPVRPKEKWNDEEIEILNKLFLLTAKPTVYLLNLSEHDYARKKNKKLPKIKEWVDEVS  257 (391)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCCCCHHHCCHHHHHHHHHHHHHHCCCEEEEEECCCCHHHHHHHHHHHHHHHHHHCCC
T ss_conf             88777777679999999860488876310058778899887633303866999836865026677787766544564148


Q ss_pred             -CCCCCCCCCHHHHHHHHCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCEEEECCCCCCCCCEECCCCCCHHHHHHCC
Q ss_conf             -9840332100246655288426778877538874228999999998729646610578754540127867677851100
Q gi|254780226|r  234 -NAEMIIISAAIEAEISQLPEEERALFMEELDISISGLELLIRSGYRLLDLITYFTVGPKETRAWTIPRGTNAQKAAGVI  312 (367)
Q Consensus       234 -~~~~i~isa~~E~ei~~l~~ee~~e~l~~~~l~~tgl~~li~~~~~lL~li~~~tvg~~e~~aw~i~~GstA~d~A~~I  312 (367)
                       +..+++.|+.+|..+..+++||+.+++++++.+ ++|.++|.++|..|+||+|||+|++|+++|+|++|++|++||++|
T Consensus       258 ~g~~~i~fs~~~e~ql~~~~~EE~~~~~~~~~~~-s~L~~iI~~~~~~L~li~fFt~G~~eV~~WtIr~gt~ap~aagvi  336 (391)
T KOG1491         258 PGDVVIVFSAAFESQLFELYEEEAVKELEDLGDS-SALPKIIKTGYSALNLIVFFTCGEDEVRAWTIRKGTKAPQAAGVI  336 (391)
T ss_pred             CCCEEEEEHHHHHHHHHCCCHHHHHHHHHHCCCC-CCHHHHHHHHHHHHCCEEEEEECCCHHEEEEHHHCCCCCCCCCEE
T ss_conf             8873887429998776214878999998745653-303599999998637357884077541010265136563236603


Q ss_pred             CCHHCCCCEEEEECCHHHHHHCCCHHHHHHCCCEECCCCEEEECCCCEEEEECCC
Q ss_conf             1210348369997368887744996888874965315760796549889996379
Q gi|254780226|r  313 HTDFEKGFIRALTISYKDYVAMGGENAAKEAGKARDEGKEYIVKDGDILHFRFNV  367 (367)
Q Consensus       313 HtDi~kgFi~A~v~~~~~~~~~~~~~~~k~~g~~r~~Gkdy~v~DGDVi~~~fnv  367 (367)
                      ||||.+|||.|++.+|+|+..++|+.++|.+|+.|++||+|+|+|||||+||||+
T Consensus       337 hsdf~k~Fi~aev~~f~D~~~~k~e~a~k~~Gk~~~~Gk~yiVedGDIi~FK~~~  391 (391)
T KOG1491         337 HSDFEKGFIMAEVMKFEDFKEYKSESACKAAGKYRQVGKEYIVEDGDIIFFKFNP  391 (391)
T ss_pred             EEHHHHHCCCCCEEEEEHHHHHCCHHHHHHHCCHHHCCCEEEECCCCEEEEEECC
T ss_conf             2024440300332553367774578899873012013740352589789986069


No 6  
>PRK09602 translation-associated GTPase; Reviewed
Probab=100.00  E-value=0  Score=730.39  Aligned_cols=333  Identities=31%  Similarity=0.506  Sum_probs=265.9

Q ss_pred             CCCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEEC----CCHHHHHHH-----HHCCCCEEEEEEEEE
Q ss_conf             98248675288878889999874048987366686744883379976----855587776-----421865023357999
Q gi|254780226|r    1 MGFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAV----PDPRMHKLA-----EIAESKDLVPTRMSF   71 (367)
Q Consensus         1 m~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v----~d~~~~~l~-----~~~~~~~~~p~~i~~   71 (367)
                      |+|||||||+|||||||||||||+ +.+++||||||||+||+|++.|    ||.|++.++     .|.+++|++|  ++|
T Consensus         1 M~lk~GIVGLPNvGKSTlFnaLT~-~~~~~aNyPF~TIePn~Gi~~v~v~~pd~~l~~~~~~~~~~~~~~~~~vp--ie~   77 (396)
T PRK09602          1 MMIQIGLVGKPNVGKSTFFSAATL-ADVEIANYPFTTIDPNVGVAYVRVECPCKELGVKCNPRNGKCIDGVRFIP--VEL   77 (396)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHC-CCCCCCCCCCCCCCCCCCEEECCCCCCHHHHHHHCCCCCCCCCCCCEEEE--EEE
T ss_conf             983488888999988999999977-99864589988877843625233688436665430654221357733655--899


Q ss_pred             EECCCCCCCCCCCCCCHHHHHHHHHCCCEEEEEECCCCCCCC---CCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             851223543222466328999987303747885012345421---13457767321578898888764332224577777
Q gi|254780226|r   72 VDIAGLVRGASKGEGLGNQFLAHIREVDAIIHVLRCFKDENI---IHVEGRIDPINDIETIETELMLSDLERLERLFEKN  148 (367)
Q Consensus        72 iDvaGLv~gA~~G~GlGN~FL~~ir~aDalihVVdaf~~~~v---~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~  148 (367)
                      +||||||+|||+|+|||||||+|||+||||+||||||++++.   +|..|++||++|+++|+.||++||+++++++|+|.
T Consensus        78 vDIAGLVkGAS~GeGLGNkFLs~IRevDaI~hVVr~~~~~d~e~~~~~~g~~DP~~DieiI~~EL~laDl~~lek~~~r~  157 (396)
T PRK09602         78 IDVAGLVPGAHEGRGLGNQFLDDLRQADALIHVVDASGSTDEEGNPVEPGSHDPVEDVKFLENEIDMWIYGILEKNWEKL  157 (396)
T ss_pred             EECCCCCCCCCCCCCCCHHHHHHHHHCCEEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             87555676501168760899998872687999975358866656526678869077899999999999999987668989


Q ss_pred             HHHHCCCHHHHHHH-HHH-------HHHHHHHHHC-CCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCC
Q ss_conf             87520320467778-999-------9988998875-87410344313267776210235764101001003430111010
Q gi|254780226|r  149 KKYRNHKSEEIVLL-QSI-------ISSSLRLIEE-GKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKG  219 (367)
Q Consensus       149 ~k~~~~~~~~~~~~-~~~-------l~~~~~~Le~-~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~  219 (367)
                      .|..+.+++..... ...       ...+...+++ +.+.+  ...|++++...+..++++|.||++|++|++|.+..+.
T Consensus       158 ~k~~k~~~~~~~~~~~e~l~~l~~~~~~v~~~l~~~~~~~~--~~~~~~ee~~~l~~~~llt~KP~iyv~N~~D~~~~~~  235 (396)
T PRK09602        158 SRKAQAEKFDLEEALAEQLSGLGISEEHVKEALRELGLPED--PSKWSEEDLLKFARELRKISKPMVIAANKADLPEAEE  235 (396)
T ss_pred             HHHHHCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHCCCCCC--CCCCCHHHHHHHHHHHHHHCCCEEEEEECCCCCCCHH
T ss_conf             99987057538999999974035469999999986588766--0207988999999987874187899987534323168


Q ss_pred             HHHHHHHHHHHHHCCCCCCCCCCHHHHHHH---------------------HCCCHHHH------HHHHHCCCCCCCHHH
Q ss_conf             134678778864369840332100246655---------------------28842677------887753887422899
Q gi|254780226|r  220 NIYTEAVQRLASQQNAEMIIISAAIEAEIS---------------------QLPEEERA------LFMEELDISISGLEL  272 (367)
Q Consensus       220 n~~~e~i~~l~~~~~~~~i~isa~~E~ei~---------------------~l~~ee~~------e~l~~~~l~~tgl~~  272 (367)
                      +     ++.+ .+.+..++++||..|..+.                     +++++|+.      +||+++|  .+|+++
T Consensus       236 ~-----~~~l-~~~~~~vi~~sa~~E~~l~~~~~~~~i~~~~~~~~~e~~~~l~e~e~~~L~~i~e~l~~~g--~tgl~~  307 (396)
T PRK09602        236 N-----IERL-KEKDYIVVPTSAEAELALRRAAKAGLIKYIPGDSDFEILGKLSEKQKKALEYIREVLEKYG--GTGVQE  307 (396)
T ss_pred             H-----HHHH-HHCCCCEEEECHHHHHHHHHHHHCCCEEECCCCHHHHHHHHCCHHHHHHHHHHHHHHHHHC--CCCHHH
T ss_conf             9-----9998-7348857750189899998766544400056603667764017888989999999998707--332899


Q ss_pred             HH-HHHHHHCCCEEEECCCCCCCC-----------CEECCCCCCHHHHHHCCCCHHCCCCEEEEECCHHHHHHCCCHHHH
Q ss_conf             99-999987296466105787545-----------401278676778511001210348369997368887744996888
Q gi|254780226|r  273 LI-RSGYRLLDLITYFTVGPKETR-----------AWTIPRGTNAQKAAGVIHTDFEKGFIRALTISYKDYVAMGGENAA  340 (367)
Q Consensus       273 li-~~~~~lL~li~~~tvg~~e~~-----------aw~i~~GstA~d~A~~IHtDi~kgFi~A~v~~~~~~~~~~~~~~~  340 (367)
                      ++ +++|++|+||+|||++ +|++           ||||++||||+|+||+|||||+||||||..              |
T Consensus       308 ~i~~~~y~lL~Litfft~e-~e~~wT~~~g~~~P~AWtik~GstA~~aAG~IHsDfekGFIrA~~--------------a  372 (396)
T PRK09602        308 AINTAVFDLLDMIVVYPVE-DENKLTDKKGNVLPDAFLLPKGSTARDLAYKIHTDIGKGFLYAID--------------A  372 (396)
T ss_pred             HHHHHHHHHCCCEEEECCC-CEEEECCCCCCCCCCEEEECCCCCHHHHHHHCCHHHHHCCHHHHH--------------C
T ss_conf             9999999862986883377-224402567761543267348992698876051166544188875--------------0


Q ss_pred             HHCCCEECCCCEEEECCCCEEEEE
Q ss_conf             874965315760796549889996
Q gi|254780226|r  341 KEAGKARDEGKEYIVKDGDILHFR  364 (367)
Q Consensus       341 k~~g~~r~~Gkdy~v~DGDVi~~~  364 (367)
                      |.   .|++||||+|||||||||.
T Consensus       373 k~---~~r~GKdYiV~DGDIi~I~  393 (396)
T PRK09602        373 RT---KRRIGEDYELKDGDVIKIV  393 (396)
T ss_pred             CC---CCEECCCEEECCCCEEEEE
T ss_conf             00---4640796276179889996


No 7  
>cd01900 YchF YchF subfamily.  YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1.  Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated with the ribosome.  Several members of the family, including YchF, possess the TGS domain related to the RNA-binding proteins.  Experimental data and genomic analysis suggest that YchF may be part of a nucleoprotein complex and may function as a GTP-dependent translational factor.
Probab=100.00  E-value=0  Score=637.41  Aligned_cols=274  Identities=58%  Similarity=0.914  Sum_probs=265.5

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCCC
Q ss_conf             86752888788899998740489873666867448833799768555877764218650233579998512235432224
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASKG   84 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~G   84 (367)
                      |||||+|||||||||||||+ +.++++|||||||+||+|+|+|||+|+++|+++++|+|++||+++|+||||||+|||+|
T Consensus         1 ~GivGlpnvGKstlFnalT~-~~~~~~nypf~ti~pn~g~v~VpD~Rl~~L~~~~~p~k~i~a~vefvDIaGLvkgAs~G   79 (274)
T cd01900           1 IGIVGLPNVGKSTLFNALTK-AGAEAANYPFCTIEPNVGIVPVPDERLDKLAEIVKPKKIVPATIEFVDIAGLVKGASKG   79 (274)
T ss_pred             CCEECCCCCCHHHHHHHHHC-CCCCCCCCCCCCCCCEEEEEECCCHHHHHHHHHHCCCCEEEEEEEEEECCCCCCCCCCC
T ss_conf             95647899988999999977-99874589977726805899677565889987317765123578998546556775236


Q ss_pred             CCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHH
Q ss_conf             66328999987303747885012345421134577673215788988887643322245777778752032046777899
Q gi|254780226|r   85 EGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLLQS  164 (367)
Q Consensus        85 ~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~~~  164 (367)
                      +|||||||+|||+||||+||||||+|++|+||+|++||++|+++|++||++||+++++|+++|.+|..+.++++...+.+
T Consensus        80 eGLGN~FL~~Ir~vDai~hVVR~F~d~~I~Hv~g~vDP~rDieiI~~ELiLaDLe~vEKrlekl~K~~k~~dk~~~~e~~  159 (274)
T cd01900          80 EGLGNKFLSHIREVDAIAHVVRCFEDDDITHVEGSVDPVRDIEIINTELILADLETVEKRLERLEKKAKSGDKEAKAELE  159 (274)
T ss_pred             CCCCHHHHHHHHHCCEEEEEHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHH
T ss_conf             76508999998734634653211157730178999797999999999999999999999999988775047777899999


Q ss_pred             HHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCCCHH
Q ss_conf             99988998875874103443132677762102357641010010034301110101346787788643698403321002
Q gi|254780226|r  165 IISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIISAAI  244 (367)
Q Consensus       165 ~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~isa~~  244 (367)
                      ++++++++|++++++|..  +|++++..++++++|||+||++||+|++|.+..+++.+..++..++...+..++++||++
T Consensus       160 ~L~ki~~~Le~g~~~r~~--~~~~ee~~~i~~l~LLT~KPviyV~Nv~E~d~~~~~~~~~~~~~~~~~~~~~~I~isaki  237 (274)
T cd01900         160 LLEKIKEHLEEGKPARSL--ELTEEEIEILNSLQLLTAKPVLYVANVSEDDLANGNNKVLKVREIAAKEGAEVIPISAKI  237 (274)
T ss_pred             HHHHHHHHHHCCCCHHCC--CCCHHHHHHHHHHHHHHCCCEEEEEECCHHHHCCCCHHHHHHHHHHHCCCCCEEEEEHHH
T ss_conf             999999998679810205--689889999986316533875999978867743662889999999766899099978999


Q ss_pred             HHHHHHCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHC
Q ss_conf             4665528842677887753887422899999999872
Q gi|254780226|r  245 EAEISQLPEEERALFMEELDISISGLELLIRSGYRLL  281 (367)
Q Consensus       245 E~ei~~l~~ee~~e~l~~~~l~~tgl~~li~~~~~lL  281 (367)
                      |.||++|+++|+.+||+++|+++||++++|+++|++|
T Consensus       238 E~Ei~~L~~eE~~efL~~lGl~esgL~~lIr~~Y~lL  274 (274)
T cd01900         238 EAELAELDEEEAAEFLEELGLEESGLDRLIRAGYELL  274 (274)
T ss_pred             HHHHHCCCHHHHHHHHHHHCCCCCHHHHHHHHHHHHC
T ss_conf             9999679999999999982998313889999998549


No 8  
>cd01899 Ygr210 Ygr210 subfamily.  Ygr210 is a member of Obg-like family and present in archaea and fungi.  They are characterized by a distinct glycine-rich motif immediately following the Walker B motif.  The Ygr210 and YyaF/YchF subfamilies appear to form one major branch of the Obg-like family.  Among eukaryotes, the Ygr210 subfamily is represented only in fungi.  These fungal proteins form a tight cluster with their archaeal orthologs, which suggests the possibility of horizontal transfer from archaea to fungi.
Probab=100.00  E-value=0  Score=556.52  Aligned_cols=280  Identities=30%  Similarity=0.426  Sum_probs=226.9

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEE----EECCCHHHHHHH-----HHCCCCEEEEEEEEEEECC
Q ss_conf             8675288878889999874048987366686744883379----976855587776-----4218650233579998512
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGE----VAVPDPRMHKLA-----EIAESKDLVPTRMSFVDIA   75 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~----~~v~d~~~~~l~-----~~~~~~~~~p~~i~~iDva   75 (367)
                      ||||||||||||||||||| ++.+++||||||||+||+|+    ++|||+|++.+|     .|.+|+|++|  ++|+|||
T Consensus         1 iGiVGlPNvGKSTlFnAlT-~~~~~~anyPF~TIePN~Gv~~v~v~~p~~~l~~~~~~~~~~~~~~~r~vP--ve~vDIA   77 (318)
T cd01899           1 IGLVGKPNAGKSTFFNAAT-LADVEIANYPFTTIDPNVGVGYVRVECPCKELGVSCNPRYGKCIDGKRYVP--VELIDVA   77 (318)
T ss_pred             CCEECCCCCCHHHHHHHHH-CCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCCCCCCCEECC--EEEEECH
T ss_conf             9344889898899999997-799851279966767741620055688416664330433120147740033--2675210


Q ss_pred             CCCCCCCCCCCCHHHHHHHHHCCCEEEEEECCCCCC---CCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             235432224663289999873037478850123454---21134577673215788988887643322245777778752
Q gi|254780226|r   76 GLVRGASKGEGLGNQFLAHIREVDAIIHVLRCFKDE---NIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYR  152 (367)
Q Consensus        76 GLv~gA~~G~GlGN~FL~~ir~aDalihVVdaf~~~---~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~  152 (367)
                      |||||||+|+|||||||+|||+|||||||||||+++   +++|+.|++||++|++||+.||++||+++++++|+|..|..
T Consensus        78 GLV~GAskG~GLGNkFL~~iRe~DaiihVVd~sg~td~eg~~~~~g~~DP~~Die~I~~EL~lw~l~~l~k~~~k~~r~~  157 (318)
T cd01899          78 GLVPGAHEGKGLGNKFLDDLRDADALIHVVDASGGTDAEGNGVETGGHDPLEDIEFLENEIDMWIYGILEKNWEKIVRKA  157 (318)
T ss_pred             HHHCCCCCCCCCHHHHHHHHHHCCEEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             01056645776659999999847889998504788678876477899596888999999999999999999999988887


Q ss_pred             CCCHHHHHH-HHHHH-------HHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHH
Q ss_conf             032046777-89999-------9889988758741034431326777621023576410100100343011101013467
Q gi|254780226|r  153 NHKSEEIVL-LQSII-------SSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTE  224 (367)
Q Consensus       153 ~~~~~~~~~-~~~~l-------~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e  224 (367)
                      +...+.... +...+       ..+...+++...... +..|+++++..+.++++++.|||+|||||+|.+....|... 
T Consensus       158 ~~~~~~~~~~l~e~lsgl~~~~~~v~~~l~~~~~~~~-~~~w~~ee~~~l~~~~l~~~KP~i~vaNk~D~~~~~~~~~~-  235 (318)
T cd01899         158 DAEKTDIVEALSEQLSGFGVNEKDVIEALEELELPED-LSKWTDEDLLRLARALRKRSKPMVIAANKADIPDAENNISK-  235 (318)
T ss_pred             HHCCCCHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCC-CCCCCHHHHHHHHHHHHHHHCCEEEEEECCCCCCCCCHHHH-
T ss_conf             6046538999999872036469999999985468887-22189999999999999863887999743446662105889-


Q ss_pred             HHHHHHHHCCCCCCCCCCHHHHHHHHC---------CCHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCEEEECCCCCCC
Q ss_conf             877886436984033210024665528---------8426778877538874228999999998729646610578754
Q gi|254780226|r  225 AVQRLASQQNAEMIIISAAIEAEISQL---------PEEERALFMEELDISISGLELLIRSGYRLLDLITYFTVGPKET  294 (367)
Q Consensus       225 ~i~~l~~~~~~~~i~isa~~E~ei~~l---------~~ee~~e~l~~~~l~~tgl~~li~~~~~lL~li~~~tvg~~e~  294 (367)
                       +.+  ...+..++++||+.|.+|..+         +++..++++++.++++.+++++..  +..+.|.+|+|+|.+|.
T Consensus       236 -~~~--k~~~~~vV~~sA~~E~~L~~a~~~g~I~y~~gd~~f~~l~e~gL~e~~~~~L~~--i~~~~L~ty~ttGVqev  309 (318)
T cd01899         236 -LRL--KYPDEIVVPTSAEAELALRRAAKQGLIKYDPGDSDFEITDELGLSEKQKEALES--IRDEVLDRFGSTGVQEA  309 (318)
T ss_pred             -HHH--HCCCCCEEEECHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHH--HHHHHHHHHCCCCHHHH
T ss_conf             -998--667984665129999999999876773248886422112567989999999999--99967788567009999


No 9  
>COG1163 DRG Predicted GTPase [General function prediction only]
Probab=100.00  E-value=0  Score=335.51  Aligned_cols=287  Identities=29%  Similarity=0.405  Sum_probs=204.7

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      +++|||+|||||||++|+|| ++.+++|.|||||.+|..|+....+                 |+||++|+||||+||+.
T Consensus        65 ~v~lVGfPsvGKStLL~~LT-nt~seva~y~FTTl~~vPG~l~Y~g-----------------a~IQild~Pgii~gas~  126 (365)
T COG1163          65 TVALVGFPSVGKSTLLNKLT-NTKSEVADYPFTTLEPVPGMLEYKG-----------------AQIQLLDLPGIIEGASS  126 (365)
T ss_pred             EEEEECCCCCCHHHHHHHHH-CCCCCCCCCCCEECCCCCCEEEECC-----------------CEEEEECCCCCCCCCCC
T ss_conf             89997688745899998876-8876434567410244574475478-----------------16999727631257656


Q ss_pred             CCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHCCCHHHHHH-
Q ss_conf             466328999987303747885012345421134577673215788988887643322245777778-752032046777-
Q gi|254780226|r   84 GEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNK-KYRNHKSEEIVL-  161 (367)
Q Consensus        84 G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~-k~~~~~~~~~~~-  161 (367)
                      |+|+|+|+|+.+|+||++|.|+|+|.+.            ..++.|+.||.-.-. ++.++-.... +....+...+.. 
T Consensus       127 g~grG~~vls~~R~ADlIiiVld~~~~~------------~~~~~i~~ELe~~GI-rlnk~~p~V~I~kk~~gGI~i~~t  193 (365)
T COG1163         127 GRGRGRQVLSVARNADLIIIVLDVFEDP------------HHRDIIERELEDVGI-RLNKRPPDVTIKKKESGGIRINGT  193 (365)
T ss_pred             CCCCCCEEEEEECCCCEEEEEEECCCCH------------HHHHHHHHHHHHCCE-EECCCCCCEEEEEECCCCEEEECC
T ss_conf             8887646546521588899997168882------------488999999985676-821799965999952598798045


Q ss_pred             ---HHHHHHHHHHHHHCCCC---CHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCC
Q ss_conf             ---89999988998875874---103443132677762102357641010010034301110101346787788643698
Q gi|254780226|r  162 ---LQSIISSSLRLIEEGKP---VRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNA  235 (367)
Q Consensus       162 ---~~~~l~~~~~~Le~~~~---~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~  235 (367)
                         ..-....+...|.+-..   .-.+.++.+-|++.-.-.-+ ...+|.++++||.|...      .+.+..+...  .
T Consensus       194 ~~l~~~d~~~ir~iL~Ey~I~nA~V~Ir~dvTlDd~id~l~~n-rvY~p~l~v~NKiD~~~------~e~~~~l~~~--~  264 (365)
T COG1163         194 GPLTHLDEDTVRAILREYRIHNADVLIREDVTLDDLIDALEGN-RVYKPALYVVNKIDLPG------LEELERLARK--P  264 (365)
T ss_pred             CCCCCCCHHHHHHHHHHHCCCCEEEEEECCCCHHHHHHHHHHC-CEEEEEEEEEECCCCCC------HHHHHHHHHC--C
T ss_conf             4566689999999999728363069994688689999998416-21323689995255668------7889999734--5


Q ss_pred             CCCCCCCHHHHHHHHCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCEEEECCC----CCCCCCEECCCCCCHHHHHHC
Q ss_conf             4033210024665528842677887753887422899999999872964661057----875454012786767785110
Q gi|254780226|r  236 EMIIISAAIEAEISQLPEEERALFMEELDISISGLELLIRSGYRLLDLITYFTVG----PKETRAWTIPRGTNAQKAAGV  311 (367)
Q Consensus       236 ~~i~isa~~E~ei~~l~~ee~~e~l~~~~l~~tgl~~li~~~~~lL~li~~~tvg----~~e~~aw~i~~GstA~d~A~~  311 (367)
                      +.+++||..                      .-+++.+....|+.|++|++||--    |+-+++..+++|||..|+|.+
T Consensus       265 ~~v~isa~~----------------------~~nld~L~e~i~~~L~liRVYtK~~g~~pd~~~PlIlr~GsTV~Dvc~~  322 (365)
T COG1163         265 NSVPISAKK----------------------GINLDELKERIWDVLGLIRVYTKPPGEEPDFDEPLILRRGSTVGDVCRK  322 (365)
T ss_pred             CEEEEECCC----------------------CCCHHHHHHHHHHHHCEEEEEECCCCCCCCCCCCEEEECCCCHHHHHHH
T ss_conf             628986556----------------------8798899999998748189984589998888898587279809999999


Q ss_pred             CCCHHCCCCEEEEECCHHHHHHCCCHHHHHHCCCEECCCCEEEECCCCEEEEE
Q ss_conf             01210348369997368887744996888874965315760796549889996
Q gi|254780226|r  312 IHTDFEKGFIRALTISYKDYVAMGGENAAKEAGKARDEGKEYIVKDGDILHFR  364 (367)
Q Consensus       312 IHtDi~kgFi~A~v~~~~~~~~~~~~~~~k~~g~~r~~Gkdy~v~DGDVi~~~  364 (367)
                      ||+||.+.|.||.|  |...+        |..|+  ++|.||+|.|+||++|-
T Consensus       323 IH~~l~~~FryA~V--WGkSv--------k~~~Q--rVG~dHvLeD~DIV~I~  363 (365)
T COG1163         323 IHRDLVENFRYARV--WGKSV--------KHPGQ--RVGLDHVLEDEDIVEIH  363 (365)
T ss_pred             HHHHHHHHCCEEEE--ECCCC--------CCCCC--CCCCCCCCCCCCEEEEE
T ss_conf             98999974556789--64677--------87964--42766470477758996


No 10 
>cd01896 DRG The developmentally regulated GTP-binding protein (DRG) subfamily is an uncharacterized member of the Obg family, an evolutionary branch of GTPase superfamily proteins.  GTPases act as molecular switches regulating diverse cellular processes.  DRG2 and DRG1 comprise the DRG subfamily in eukaryotes.  In view of their widespread expression in various tissues and high conservation among distantly related species in eukaryotes and archaea, DRG proteins may regulate fundamental cellular processes.  It is proposed that the DRG subfamily proteins play their physiological roles through RNA binding.
Probab=100.00  E-value=1.6e-39  Score=286.17  Aligned_cols=224  Identities=27%  Similarity=0.355  Sum_probs=154.5

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      ++||||+||||||||||+||+ +.++++||||||++|+.|++.+++                 ++++++|+||+++|||+
T Consensus         2 ~V~LVG~PN~GKSTLln~LT~-a~~~v~~ypfTT~~pi~g~~~~~~-----------------~~iqlvDtPGli~~a~~   63 (233)
T cd01896           2 RVALVGFPSVGKSTLLSKLTN-TKSEVAAYEFTTLTCVPGVLEYKG-----------------AKIQLLDLPGIIEGAAD   63 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHHC-CCCCCCCCCCCCCCCEEEEEEECC-----------------EEEEEEECCCCCCCCCC
T ss_conf             599999999999999999978-995436989787574777999899-----------------89999967300246333


Q ss_pred             CCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHCCC------
Q ss_conf             46632899998730374788501234542113457767321578898888764332224577777--8752032------
Q gi|254780226|r   84 GEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKN--KKYRNHK------  155 (367)
Q Consensus        84 G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~--~k~~~~~------  155 (367)
                      |+|+||+||+.+|+||+++||||++            +|..+++.+..||..+... +.+...+.  ++....+      
T Consensus        64 g~g~g~~~l~~~r~aD~il~VvD~~------------~~~~~~~~i~~eLe~~gi~-l~~~~~~v~i~~~~~~gi~i~~~  130 (233)
T cd01896          64 GKGRGRQVIAVARTADLILMVLDAT------------KPEGHREILERELEGVGIR-LNKRPPNITIKKKKKGGINITST  130 (233)
T ss_pred             CCCHHHHHHHHHHHCCEEEEEEECC------------CCHHHHHHHHHHHHHHCCC-CCCCCCCCEEEEECCCCEEEECC
T ss_conf             3206899999987589999998479------------8266789999999860511-03578762577713586786045


Q ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCC
Q ss_conf             04677789999988998875874103443132677762102357641010010034301110101346787788643698
Q gi|254780226|r  156 SEEIVLLQSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNA  235 (367)
Q Consensus       156 ~~~~~~~~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~  235 (367)
                      .+........+...+....-....-.+..+++.|+..-.-.-++ ..||+++|+||.|....      +.+.++.  ...
T Consensus       131 ~~~~~~~~~~v~~il~e~~i~~a~v~i~~~~t~dd~~d~i~~n~-~y~P~i~V~NKiDl~~~------ee~~~~~--~~~  201 (233)
T cd01896         131 VPLTKLDEKTIKAILREYKIHNADVLIREDITVDDLIDVIEGNR-VYIPCLYVYNKIDLISI------EELDLLA--RQP  201 (233)
T ss_pred             CCCCCCCHHHHHHHHHHHCCCCCEEEECCCCCHHHHHHHHHCCC-CCCCEEEEEECCCCCCH------HHHHHHH--CCC
T ss_conf             66666888999999998276764378605788889899873576-76737999974036998------9999864--679


Q ss_pred             CCCCCCCHHHHHHHHCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCEEEECC
Q ss_conf             403321002466552884267788775388742289999999987296466105
Q gi|254780226|r  236 EMIIISAAIEAEISQLPEEERALFMEELDISISGLELLIRSGYRLLDLITYFTV  289 (367)
Q Consensus       236 ~~i~isa~~E~ei~~l~~ee~~e~l~~~~l~~tgl~~li~~~~~lL~li~~~tv  289 (367)
                      +++++||.                      +..|++.|..+.|+.|++|+|||-
T Consensus       202 ~~i~ISA~----------------------~g~gld~L~~~I~~~L~liRvytK  233 (233)
T cd01896         202 NSVVISAE----------------------KGLNLDELKERIWDKLGLIRVYTK  233 (233)
T ss_pred             CEEEEECC----------------------CCCCHHHHHHHHHHHHCCEEEECC
T ss_conf             85999888----------------------898989999999998396899559


No 11 
>PRK12296 obgE GTPase ObgE; Reviewed
Probab=100.00  E-value=4.1e-38  Score=276.77  Aligned_cols=165  Identities=32%  Similarity=0.549  Sum_probs=126.0

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      .+||||+||+|||||.+++| ++.++||||||||+.||.|++.+.|.                 ++.+.||||||+|||+
T Consensus       161 DVGLvG~PNaGKSTLl~~iS-~AkpkIA~YpFTTL~PnLGvv~~~d~-----------------~f~iADiPGLIeGAs~  222 (495)
T PRK12296        161 DVGLVGFPSAGKSSLISAIS-AAKPKIADYPFTTLVPNLGVVSAGDH-----------------TFTVADVPGLIPGASE  222 (495)
T ss_pred             CCCEECCCCCCHHHHHHHHH-CCCCCCCCCCCCCCCCEEEEEECCCC-----------------EEEEEECCCCCCCCCC
T ss_conf             31101189996158998875-48876578775545754678970795-----------------2899856643465003


Q ss_pred             CCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Q ss_conf             46632899998730374788501234542113457767321578898888764332224577777875203204677789
Q gi|254780226|r   84 GEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLLQ  163 (367)
Q Consensus        84 G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~~  163 (367)
                      |+|||.+||.||..|-+|+||||++..+      ...||++|++.|+.||...+-+                        
T Consensus       223 g~GLG~~FLRHieR~~vL~hviD~~~~e------~~rDP~~d~~~I~~EL~~Y~~~------------------------  272 (495)
T PRK12296        223 GRGLGLDFLRHIERCAVLVHVVDCATLE------PGRDPISDIDALEAELAAYTPT------------------------  272 (495)
T ss_pred             CCCCHHHHHHHHHHCCEEEEEEECCCCC------CCCCHHHHHHHHHHHHHHCCHH------------------------
T ss_conf             8984399999875254799999688766------6789699999999999971914------------------------


Q ss_pred             HHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCCCH
Q ss_conf             99998899887587410344313267776210235764101001003430111010134678778864369840332100
Q gi|254780226|r  164 SIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIISAA  243 (367)
Q Consensus       164 ~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~isa~  243 (367)
                               |..                  ...+.-|..||.++|+||+|...++.  ..+.+++.....+.+++++||.
T Consensus       273 ---------l~~------------------~~~~~~L~erpqIVvlNKiDlp~a~e--~~e~~~~~l~~~g~~Vf~ISA~  323 (495)
T PRK12296        273 ---------LQG------------------DAGLGDLAERPRLVVLNKIDVPDARE--LAEFVRPELEERGWPVFEVSTV  323 (495)
T ss_pred             ---------HHC------------------CCCCCCCCCCCEEEEEECCCCCCHHH--HHHHHHHHHHHCCCCEEEEECC
T ss_conf             ---------304------------------43323210196599996656757699--9999999998749957998641


Q ss_pred             HH
Q ss_conf             24
Q gi|254780226|r  244 IE  245 (367)
Q Consensus       244 ~E  245 (367)
                      ..
T Consensus       324 t~  325 (495)
T PRK12296        324 TR  325 (495)
T ss_pred             CC
T ss_conf             00


No 12 
>TIGR02729 Obg_CgtA GTP-binding protein Obg/CgtA; InterPro: IPR014100   This entry describes a universal, mostly one-gene-per-genome GTP-binding protein that associates with ribosomal subunits and appears to play a role in ribosomal RNA maturation. Mutations in this gene are pleiotropic, but it appears that effects on cellular functions such as chromosome partition may be secondary to the effect on ribosome structure..
Probab=100.00  E-value=9.5e-39  Score=281.04  Aligned_cols=115  Identities=42%  Similarity=0.737  Sum_probs=97.6

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      .|||||+||||||||+|++| +|.++||||||||+.||.|+|++.|.+.             .-++-+.||||||+|||+
T Consensus       160 DVGLvGfPNAGKSTLLs~~S-~AkPKiAdYPFTTL~P~LGvv~~~~~~Y-------------~~~fviADIPGLIEGAs~  225 (296)
T TIGR02729       160 DVGLVGFPNAGKSTLLSAIS-NAKPKIADYPFTTLEPNLGVVRVDDNKY-------------ERSFVIADIPGLIEGASE  225 (296)
T ss_pred             EEEEECCCCCCHHHHHHHHH-CCCCEECCCCCCCCCCCEEEEEECCCCE-------------EEEEEEEECCCCHHHHHC
T ss_conf             02103578874688888876-2788223878745653112898748741-------------688999856861566626


Q ss_pred             CCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHH
Q ss_conf             466328999987303747885012345421134577673215788988887
Q gi|254780226|r   84 GEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELM  134 (367)
Q Consensus        84 G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~  134 (367)
                      |+|||-|||.||.+|-+|+||||+++. .+- ....-||++|++.|+.||-
T Consensus       226 G~GLG~~FLKHIERt~~L~hviD~~~~-qlS-kh~~~~p~~~y~~l~~EL~  274 (296)
T TIGR02729       226 GKGLGHKFLKHIERTRLLLHVIDASGI-QLS-KHDGRDPIEDYETLRNELE  274 (296)
T ss_pred             CCCCCHHHHHHHHHEEEEEEEEECCCC-EEE-ECCCCCHHHHHHHHHHHHH
T ss_conf             887533554575202668879806875-342-4289888999999999997


No 13 
>PRK12297 obgE GTPase ObgE; Reviewed
Probab=100.00  E-value=6.7e-38  Score=275.32  Aligned_cols=172  Identities=37%  Similarity=0.569  Sum_probs=135.3

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      .+||||+||+|||||++++| ++.++||||||||+.||.|++.+++.                ..+.+.|+||||+|||+
T Consensus       160 DVGLvG~PNaGKSTll~~is-~A~pkIa~YpFTTl~P~lGvv~~~~~----------------~~~~iADiPGLIeGA~~  222 (429)
T PRK12297        160 DVGLVGFPNVGKSTLLSVVS-NAKPKIANYHFTTLVPNLGVVETDDG----------------RSFVMADLPGLIEGASE  222 (429)
T ss_pred             CCCEEECCCCCHHHHHHHHH-CCCCCCCCCCCCCCCCEEEEEEECCC----------------CEEEEEECCCCCCCCCC
T ss_conf             76336479984578998875-48975578774025766668985698----------------66999626745677446


Q ss_pred             CCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Q ss_conf             46632899998730374788501234542113457767321578898888764332224577777875203204677789
Q gi|254780226|r   84 GEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLLQ  163 (367)
Q Consensus        84 G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~~  163 (367)
                      |+|||.+||.||.+|.+|+||||+++.+       ..||++|++.|+.||..++-+                        
T Consensus       223 g~GLG~~FLrHieR~~~L~hviD~s~~~-------~~dp~~d~~~i~~EL~~y~~~------------------------  271 (429)
T PRK12297        223 GVGLGHQFLRHIERTRVIVHVIDMSGSE-------GRDPIEDYETINKELKKYNLR------------------------  271 (429)
T ss_pred             CCCCCHHHHHHHHHCCEEEEEEECCCCC-------CCCHHHHHHHHHHHHHHHCHH------------------------
T ss_conf             8886688888766246799999787877-------779899999999999986898------------------------


Q ss_pred             HHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCCCH
Q ss_conf             99998899887587410344313267776210235764101001003430111010134678778864369840332100
Q gi|254780226|r  164 SIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIISAA  243 (367)
Q Consensus       164 ~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~isa~  243 (367)
                                                          +..||.++|+||+|...++.+  .+.+++... .+.+++.+||.
T Consensus       272 ------------------------------------L~~kp~ivv~NK~Dl~~~~~~--~~~~~~~~~-~~~~i~~iSa~  312 (429)
T PRK12297        272 ------------------------------------LLERPQIIVANKMDLPEAEEN--LEEFKEKLA-KGKKVFPISAL  312 (429)
T ss_pred             ------------------------------------HHCCCEEEEEECCCCCCHHHH--HHHHHHHHH-CCCCEEEEECC
T ss_conf             ------------------------------------726966999976458576999--999999753-46978999684


Q ss_pred             HHHHHHHCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCE
Q ss_conf             24665528842677887753887422899999999872964
Q gi|254780226|r  244 IEAEISQLPEEERALFMEELDISISGLELLIRSGYRLLDLI  284 (367)
Q Consensus       244 ~E~ei~~l~~ee~~e~l~~~~l~~tgl~~li~~~~~lL~li  284 (367)
                      .                      ..|++.++...+++|.-.
T Consensus       313 t----------------------~egl~~l~~~i~~~l~~~  331 (429)
T PRK12297        313 T----------------------KQGLDELLYAIAELLEKT  331 (429)
T ss_pred             C----------------------CCCHHHHHHHHHHHHHHC
T ss_conf             4----------------------519999999999999857


No 14 
>PRK12298 obgE GTPase ObgE; Reviewed
Probab=100.00  E-value=1.3e-36  Score=266.60  Aligned_cols=174  Identities=31%  Similarity=0.493  Sum_probs=133.1

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      .+||||+||+|||||++++| .+.++||+|||||+.||.|++.+++.+                .+.+.||||||+|||+
T Consensus       161 DVGLvG~PNAGKSTll~~iS-~AkPKIAdYpFTTL~PnLGvV~~~~~~----------------~fviADIPGLIeGAs~  223 (380)
T PRK12298        161 DVGLLGLPNAGKSTFIRAVS-AAKPKVADYPFTTLVPNLGVVRVDDER----------------SFVIADIPGLIEGAAE  223 (380)
T ss_pred             CCCEEECCCCCCHHHHHHHH-CCCCCCCCCCCCCCCCEEEEEEECCCC----------------EEEEEECCCCCCCCCC
T ss_conf             65146369886108998855-589754788753368746799946986----------------6999877755577555


Q ss_pred             CCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Q ss_conf             46632899998730374788501234542113457767321578898888764332224577777875203204677789
Q gi|254780226|r   84 GEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLLQ  163 (367)
Q Consensus        84 G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~~  163 (367)
                      |+|||.+||.||.+|.+|+||||++..+       ..||++|+..|+.||...+-+                        
T Consensus       224 G~GLG~~FLrHieRt~~LlhviD~s~~~-------~~dp~~~~~~i~~EL~~Y~~~------------------------  272 (380)
T PRK12298        224 GAGLGIRFLKHLERCRVLLHLIDIAPID-------GSDPVENARIIVNELEKYSPK------------------------  272 (380)
T ss_pred             CCCHHHHHHHHHHHHCEEEEEEECCCCC-------CCCHHHHHHHHHHHHHHHCHH------------------------
T ss_conf             8772899999987535899999688777-------519999999999999985976------------------------


Q ss_pred             HHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCC--CCCCCCC
Q ss_conf             99998899887587410344313267776210235764101001003430111010134678778864369--8403321
Q gi|254780226|r  164 SIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQN--AEMIIIS  241 (367)
Q Consensus       164 ~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~--~~~i~is  241 (367)
                                                          +..||.++|+||+|....+  ...+.++++....+  .+++++|
T Consensus       273 ------------------------------------L~~kp~iiv~NK~Dl~~~~--e~~~~~~~~~~~~~~~~~v~~IS  314 (380)
T PRK12298        273 ------------------------------------LAEKPRWLVFNKIDLLDEE--EAEERAKEIVEALGWEGPVYLIS  314 (380)
T ss_pred             ------------------------------------HCCCCEEEEEECCCCCCHH--HHHHHHHHHHHHCCCCCCEEEEE
T ss_conf             ------------------------------------6059879999885489979--99999999999708888879997


Q ss_pred             CHHHHHHHHCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCEE
Q ss_conf             00246655288426778877538874228999999998729646
Q gi|254780226|r  242 AAIEAEISQLPEEERALFMEELDISISGLELLIRSGYRLLDLIT  285 (367)
Q Consensus       242 a~~E~ei~~l~~ee~~e~l~~~~l~~tgl~~li~~~~~lL~li~  285 (367)
                      |.                      +..|++.|+....++|+-..
T Consensus       315 A~----------------------tgeG~~~L~~~i~~~l~~~~  336 (380)
T PRK12298        315 AA----------------------SGEGTKELCWDLMTFIEENP  336 (380)
T ss_pred             CC----------------------CCCCHHHHHHHHHHHHHHCC
T ss_conf             87----------------------68799999999999998672


No 15 
>PRK12299 obgE GTPase ObgE; Reviewed
Probab=100.00  E-value=3.3e-36  Score=263.86  Aligned_cols=168  Identities=35%  Similarity=0.601  Sum_probs=133.3

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      .+||||+||+|||||+|++| .+.++||||||||+.||+|++.++|.                .++.+.|+||||+|||+
T Consensus       160 DVgLVG~PNaGKSTLl~~is-~A~pkIa~YpFTTl~P~lGvv~~~d~----------------~~~~iaDiPGlIegA~~  222 (334)
T PRK12299        160 DVGLVGLPNAGKSTLISSVS-AAKPKIADYPFTTLHPNLGVVRVDDY----------------KSFVIADIPGLIEGASE  222 (334)
T ss_pred             CCEEEECCCCCHHHHHHHHH-CCCCCCCCCCCEECCCEEEEEEECCC----------------CEEEEEECCCCCCCCCC
T ss_conf             30146369874669999876-47643357873003875479994688----------------67899866743355234


Q ss_pred             CCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Q ss_conf             46632899998730374788501234542113457767321578898888764332224577777875203204677789
Q gi|254780226|r   84 GEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLLQ  163 (367)
Q Consensus        84 G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~~  163 (367)
                      |+|||.+||.||.+|++|+||||++.+          ||++|++.|..||...+                          
T Consensus       223 g~GLG~~FLrHieR~~~L~~viD~s~~----------d~~~~~~~l~~EL~~y~--------------------------  266 (334)
T PRK12299        223 GAGLGHRFLKHIERTRLLLHLVDASSE----------DPVEDYKTIRNELEKYS--------------------------  266 (334)
T ss_pred             CCCCHHHHHHHHHHCCEEEEEEECCCC----------CHHHHHHHHHHHHHHHH--------------------------
T ss_conf             777478998766534369999979988----------98999999999999850--------------------------


Q ss_pred             HHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCCCH
Q ss_conf             99998899887587410344313267776210235764101001003430111010134678778864369840332100
Q gi|254780226|r  164 SIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIISAA  243 (367)
Q Consensus       164 ~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~isa~  243 (367)
                                              .          .+..||.++|+||+|....+  ...+.++++....+.+++++||.
T Consensus       267 ------------------------~----------~L~~Kp~ivvlNK~Dl~~~~--~~~~~~~~~~~~~~~~v~~ISA~  310 (334)
T PRK12299        267 ------------------------P----------ELADKPRILVLNKIDLLDEE--ERKEKIKELIKALGGPVFLISAV  310 (334)
T ss_pred             ------------------------H----------HHCCCCEEEEEECCCCCCHH--HHHHHHHHHHHHCCCCEEEEECC
T ss_conf             ------------------------6----------55369879999881068856--78999999998709968999787


Q ss_pred             HHHHHHHCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHCC
Q ss_conf             246655288426778877538874228999999998729
Q gi|254780226|r  244 IEAEISQLPEEERALFMEELDISISGLELLIRSGYRLLD  282 (367)
Q Consensus       244 ~E~ei~~l~~ee~~e~l~~~~l~~tgl~~li~~~~~lL~  282 (367)
                      .                      ..|++.|++..+++|+
T Consensus       311 ~----------------------g~Gl~eL~~~i~~~L~  327 (334)
T PRK12299        311 T----------------------GEGLDELLRALWEFLK  327 (334)
T ss_pred             C----------------------CCCHHHHHHHHHHHHH
T ss_conf             7----------------------8499999999999999


No 16 
>pfam06071 YchF-GTPase_C Protein of unknown function (DUF933). This domain is found at the C terminus of the YchF GTP-binding protein and is possibly related to the ubiquitin-like and MoaD/ThiS superfamilies.
Probab=100.00  E-value=1.5e-35  Score=259.49  Aligned_cols=84  Identities=71%  Similarity=1.161  Sum_probs=83.5

Q ss_pred             CEEEECCCCCCCCCEECCCCCCHHHHHHCCCCHHCCCCEEEEECCHHHHHHCCCHHHHHHCCCEECCCCEEEECCCCEEE
Q ss_conf             64661057875454012786767785110012103483699973688877449968888749653157607965498899
Q gi|254780226|r  283 LITYFTVGPKETRAWTIPRGTNAQKAAGVIHTDFEKGFIRALTISYKDYVAMGGENAAKEAGKARDEGKEYIVKDGDILH  362 (367)
Q Consensus       283 li~~~tvg~~e~~aw~i~~GstA~d~A~~IHtDi~kgFi~A~v~~~~~~~~~~~~~~~k~~g~~r~~Gkdy~v~DGDVi~  362 (367)
                      ||+|||+||+|+||||+++|||||++||+|||||+||||||+|++|+|+++++|++++|++|++|+|||||+|+|||||+
T Consensus         1 LitffT~G~~EvRaWti~~G~~Ap~AAG~IHtDfekgFIrAEvi~~~d~~~~g~~~~~k~~Gk~r~eGKdYiv~DGDii~   80 (84)
T pfam06071         1 LITFFTAGPKEVRAWTIRKGTTAPQAAGVIHSDFEKGFIRAEVISYDDLIEYGSEAKAKEAGKLRLEGKDYIVQDGDIIH   80 (84)
T ss_pred             CCCEECCCCCCEEEEECCCCCCCHHHCCCEECHHHHCCEEEEEECHHHHHHCCCHHHHHHCCCCCCCCCCEEEECCCEEE
T ss_conf             95275789980578772589823344373122222174898860899999849999998869725249814883697999


Q ss_pred             EECC
Q ss_conf             9637
Q gi|254780226|r  363 FRFN  366 (367)
Q Consensus       363 ~~fn  366 (367)
                      ||||
T Consensus        81 FkfN   84 (84)
T pfam06071        81 FRFN   84 (84)
T ss_pred             EECC
T ss_conf             9669


No 17 
>COG0536 Obg Predicted GTPase [General function prediction only]
Probab=100.00  E-value=3.3e-34  Score=250.44  Aligned_cols=106  Identities=44%  Similarity=0.760  Sum_probs=94.9

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      .+||||+||+|||||+|++| .+.+.||||||||+-||.|+|++.+           ..+     +-+-||||||+|||+
T Consensus       161 DVGLVG~PNaGKSTlls~vS-~AkPKIadYpFTTL~PnLGvV~~~~-----------~~s-----fv~ADIPGLIEGAs~  223 (369)
T COG0536         161 DVGLVGLPNAGKSTLLSAVS-AAKPKIADYPFTTLVPNLGVVRVDG-----------GES-----FVVADIPGLIEGASE  223 (369)
T ss_pred             CCCCCCCCCCCHHHHHHHHH-HCCCCCCCCCCCCCCCCCCEEEECC-----------CCE-----EEEECCCCCCCCCCC
T ss_conf             11412589885798998886-0688544886530247530799648-----------860-----799347532356446


Q ss_pred             CCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHH
Q ss_conf             46632899998730374788501234542113457767321578898888
Q gi|254780226|r   84 GEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETEL  133 (367)
Q Consensus        84 G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL  133 (367)
                      |+|||.+||.||..|.+|+||||++..+       ..||++|++.|+.||
T Consensus       224 G~GLG~~FLrHIERt~vL~hviD~s~~~-------~~dp~~~~~~i~~EL  266 (369)
T COG0536         224 GVGLGLRFLRHIERTRVLLHVIDLSPID-------GRDPIEDYQTIRNEL  266 (369)
T ss_pred             CCCCCHHHHHHHHHHHEEEEEEECCCCC-------CCCHHHHHHHHHHHH
T ss_conf             8876388887888651547998567656-------779899999999999


No 18 
>cd04867 TGS_YchF_C TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the family contain a C-terminal TGS domain. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=100.00  E-value=9.8e-35  Score=253.96  Aligned_cols=83  Identities=66%  Similarity=1.142  Sum_probs=82.4

Q ss_pred             CEEEECCCCCCCCCEECCCCCCHHHHHHCCCCHHCCCCEEEEECCHHHHHHCCCHHHHHHCCCEECCCCEEEECCCCEEE
Q ss_conf             64661057875454012786767785110012103483699973688877449968888749653157607965498899
Q gi|254780226|r  283 LITYFTVGPKETRAWTIPRGTNAQKAAGVIHTDFEKGFIRALTISYKDYVAMGGENAAKEAGKARDEGKEYIVKDGDILH  362 (367)
Q Consensus       283 li~~~tvg~~e~~aw~i~~GstA~d~A~~IHtDi~kgFi~A~v~~~~~~~~~~~~~~~k~~g~~r~~Gkdy~v~DGDVi~  362 (367)
                      ||+|||+||+|+||||+++|||||++||+|||||+||||||+|++|+|++++||++++|++|++|+|||||+|||||||+
T Consensus         1 LitffT~G~~E~RaWti~~G~~Ap~AAG~IHsDfekgFIrAEvi~~~d~i~~g~e~~ak~~Gk~r~eGKdYiv~DGDii~   80 (83)
T cd04867           1 LISFFTAGPDEVRAWTIRKGTKAPQAAGVIHTDFEKGFIRAEVMKYEDLVELGSEAAAKEAGKYRQEGKDYVVQDGDIIF   80 (83)
T ss_pred             CCCEECCCCCEEEEEECCCCCCCHHHCCEEHHHHHHCCEEEEECCHHHHHHCCCHHHHHHCCCCCCCCCEEEEECCCEEE
T ss_conf             95364579981388252589832454270624454443898860899999849999998859723328814883795999


Q ss_pred             EEC
Q ss_conf             963
Q gi|254780226|r  363 FRF  365 (367)
Q Consensus       363 ~~f  365 (367)
                      |||
T Consensus        81 F~F   83 (83)
T cd04867          81 FKF   83 (83)
T ss_pred             EEC
T ss_conf             969


No 19 
>KOG1486 consensus
Probab=99.98  E-value=1.3e-32  Score=239.61  Aligned_cols=279  Identities=27%  Similarity=0.422  Sum_probs=200.4

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      ++.++|+|+||||||++.+| +..+++|+|.|||..--.|+....+                 +.||++|+||+|+|||+
T Consensus        64 RValIGfPSVGKStlLs~iT-~T~SeaA~yeFTTLtcIpGvi~y~g-----------------a~IQllDLPGIieGAsq  125 (364)
T KOG1486          64 RVALIGFPSVGKSTLLSKIT-STHSEAASYEFTTLTCIPGVIHYNG-----------------ANIQLLDLPGIIEGASQ  125 (364)
T ss_pred             EEEEECCCCCCHHHHHHHHH-CCHHHHHCCEEEEEEEECCEEEECC-----------------CEEEEECCCCCCCCCCC
T ss_conf             79996488744787888764-1102221102467873031687668-----------------34799627530002113


Q ss_pred             CCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHCCCHHH
Q ss_conf             466328999987303747885012345421134577673215788988887643322245777778-----752032046
Q gi|254780226|r   84 GEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNK-----KYRNHKSEE  158 (367)
Q Consensus        84 G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~-----k~~~~~~~~  158 (367)
                      |+|+|.|..+..|.||.++.|+||...+            .+-+.++.||     +.+.-|+.|.+     +.++.+...
T Consensus       126 gkGRGRQviavArtaDlilMvLDatk~e------------~qr~~le~EL-----e~vGiRLNk~~Pniy~k~kk~gGi~  188 (364)
T KOG1486         126 GKGRGRQVIAVARTADLILMVLDATKSE------------DQREILEKEL-----EAVGIRLNKRKPNIYFKKKKTGGIS  188 (364)
T ss_pred             CCCCCCEEEEEEECCCEEEEEECCCCCH------------HHHHHHHHHH-----HHHCEECCCCCCCEEEEEECCCCEE
T ss_conf             7887726888740365899995177615------------6789999999-----9741341478997588874368767


Q ss_pred             HHHH-------HHHHHHHHHHH---HCCCCCHHHHHHCCHH-HHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHH
Q ss_conf             7778-------99999889988---7587410344313267-77621023576410100100343011101013467877
Q gi|254780226|r  159 IVLL-------QSIISSSLRLI---EEGKPVRSLLESLDSD-AIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQ  227 (367)
Q Consensus       159 ~~~~-------~~~l~~~~~~L---e~~~~~r~~~~~~~~d-e~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~  227 (367)
                      +...       +.....++...   +.+...|   ++.+.| -+..+ +-++.. =|.+|+-||.|.      .-.+++.
T Consensus       189 f~~T~plT~~~ek~i~~ILheykI~Naevl~R---ed~t~DdfIDvi-~gnr~Y-~~ClYvYnKID~------vs~eevd  257 (364)
T KOG1486         189 FNTTVPLTHCDEKLIYTILHEYKIHNAEVLFR---EDCTVDDFIDVI-EGNRVY-IKCLYVYNKIDQ------VSIEEVD  257 (364)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHEECCCEEEEE---CCCCHHHHHHHH-HCCCEE-EEEEEEEECCCE------ECHHHHH
T ss_conf             74240452354999999998874455138984---378668788887-456327-888899512442------0388888


Q ss_pred             HHHHHCCCCCCCCCCHHHHHHHHCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCEEEECC----CCCCCCCEECCCCC
Q ss_conf             88643698403321002466552884267788775388742289999999987296466105----78754540127867
Q gi|254780226|r  228 RLASQQNAEMIIISAAIEAEISQLPEEERALFMEELDISISGLELLIRSGYRLLDLITYFTV----GPKETRAWTIPRGT  303 (367)
Q Consensus       228 ~l~~~~~~~~i~isa~~E~ei~~l~~ee~~e~l~~~~l~~tgl~~li~~~~~lL~li~~~tv----g~~e~~aw~i~~Gs  303 (367)
                      +++...  ..+++|..+.                      -+++.+....++.|+|.++||.    -|+..++..+++|+
T Consensus       258 rlar~P--nsvViSC~m~----------------------lnld~lle~iWe~l~L~rvYtKk~G~~Pdfdd~~vlr~g~  313 (364)
T KOG1486         258 RLARQP--NSVVISCNMK----------------------LNLDRLLERIWEELNLVRVYTKKKGQRPDFDDPLVLRKGS  313 (364)
T ss_pred             HHHCCC--CCEEEEECCC----------------------CCHHHHHHHHHHHHCEEEEEECCCCCCCCCCCCEEEECCC
T ss_conf             986289--8589980344----------------------6889999999987410899824888999999853876797


Q ss_pred             CHHHHHHCCCCHHCCCCEEEEECCHHHHHHCCCHHHHHHCCCEECCCCEEEECCCCEEEEE
Q ss_conf             6778511001210348369997368887744996888874965315760796549889996
Q gi|254780226|r  304 NAQKAAGVIHTDFEKGFIRALTISYKDYVAMGGENAAKEAGKARDEGKEYIVKDGDILHFR  364 (367)
Q Consensus       304 tA~d~A~~IHtDi~kgFi~A~v~~~~~~~~~~~~~~~k~~g~~r~~Gkdy~v~DGDVi~~~  364 (367)
                      |..|++.+||.||..-|-||.|+.+.          +|.-  -.++|-.|.+.|-|||-+-
T Consensus       314 tve~~C~~iHr~l~~qfkyAlVWGtS----------~khs--PQrvgl~h~~~dEdvvqi~  362 (364)
T KOG1486         314 TVEDVCHRIHRTLAAQFKYALVWGTS----------AKHS--PQRVGLGHTLEDEDVVQIV  362 (364)
T ss_pred             CHHHHHHHHHHHHHHHHCEEEEECCC----------CCCC--CCEECCCCCCCCCCCEEEE
T ss_conf             29999999999999861032575245----------5638--6234364312555600033


No 20 
>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=99.98  E-value=1.4e-31  Score=232.75  Aligned_cols=176  Identities=53%  Similarity=0.840  Sum_probs=138.0

Q ss_pred             EEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCCCCC
Q ss_conf             75288878889999874048987366686744883379976855587776421865023357999851223543222466
Q gi|254780226|r    7 IIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASKGEG   86 (367)
Q Consensus         7 lvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~G~G   86 (367)
                      |||.||||||||||++|+ ..+.++||||||.+|+.|.+..++                +.+++|+|+||+++++|++++
T Consensus         1 ivG~PNvGKSTL~N~Lt~-~~~~v~~~pgTTr~~~~g~~~~~~----------------~~~i~~~DtpGi~~~~~~~~~   63 (176)
T cd01881           1 LVGLPNVGKSTLLNALTN-AKPKVANYPFTTLEPNLGVVEVPD----------------GARIQVADIPGLIEGASEGRG   63 (176)
T ss_pred             CCCCCCCCHHHHHHHHHC-CCCEEECCCCCEEEEEEEEEEECC----------------CCEEEEEECCCCCCCCHHHHH
T ss_conf             969998889999999968-996030789967612467999479----------------966999957875457337878


Q ss_pred             CHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHH
Q ss_conf             32899998730374788501234542113457767321578898888764332224577777875203204677789999
Q gi|254780226|r   87 LGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLLQSII  166 (367)
Q Consensus        87 lGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~~~~l  166 (367)
                      ++++||+++++||+++||||++.+..    .+..+|++|+++++.||..++....                         
T Consensus        64 ~~~~~l~~~~~~d~il~vvD~~~~~~----~~~~~~~~~~~~i~~el~~~~~~~~-------------------------  114 (176)
T cd01881          64 LGNQFLAHIRRADAILHVVDASEDDD----IGGVDPLEDYEILNAELKLYDLETI-------------------------  114 (176)
T ss_pred             HHHHHHHHHHCCCEEEEEEECCCCCC----CCCCCHHHHHHHHHHHHHHCCHHHH-------------------------
T ss_conf             99999987410889999998987655----4544589999999999997115665-------------------------


Q ss_pred             HHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCCCHHHH
Q ss_conf             98899887587410344313267776210235764101001003430111010134678778864369840332100246
Q gi|254780226|r  167 SSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIISAAIEA  246 (367)
Q Consensus       167 ~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~isa~~E~  246 (367)
                                                    ..++..||+++|+||.|....+. .............+.+++++||.   
T Consensus       115 ------------------------------~~~~~~kp~i~v~NK~Dl~~~~~-~~~~~~~~~~~~~~~~ii~iSA~---  160 (176)
T cd01881         115 ------------------------------LGLLTAKPVIYVLNKIDLDDAEE-LEEELVRELALEEGAEVVPISAK---  160 (176)
T ss_pred             ------------------------------HHHHCCCCEEEEEECEECCCHHH-HHHHHHHHHHHCCCCCEEEEECC---
T ss_conf             ------------------------------55432697199996860347003-15999999974689958999777---


Q ss_pred             HHHHCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHC
Q ss_conf             65528842677887753887422899999999872
Q gi|254780226|r  247 EISQLPEEERALFMEELDISISGLELLIRSGYRLL  281 (367)
Q Consensus       247 ei~~l~~ee~~e~l~~~~l~~tgl~~li~~~~~lL  281 (367)
                                         +..|++.|.+..+++|
T Consensus       161 -------------------~~~gi~~L~~~i~~~L  176 (176)
T cd01881         161 -------------------TEEGLDELIRAIYELL  176 (176)
T ss_pred             -------------------CCCCHHHHHHHHHHHC
T ss_conf             -------------------8879999999999659


No 21 
>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=99.96  E-value=4.4e-28  Score=209.14  Aligned_cols=168  Identities=38%  Similarity=0.565  Sum_probs=125.6

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      .|+|||.||||||||||++|+ +.+.+++|||||.+|+.|++..++                +.++.|+|.||++++||+
T Consensus         2 ~VAiiG~pNvGKSTLlN~l~~-~~~~V~~~pgTT~~~~~g~i~~~~----------------~~~i~~~DtpGi~~~~~~   64 (170)
T cd01898           2 DVGLVGLPNAGKSTLLSAISN-AKPKIADYPFTTLVPNLGVVRVDD----------------GRSFVVADIPGLIEGASE   64 (170)
T ss_pred             CEEEECCCCCCHHHHHHHHHC-CCCEEECCCCCCCCCEEEEEEECC----------------CCEEEEECCCCCCCCCCC
T ss_conf             589989999989999999967-876032566652374477999369----------------856999648864445546


Q ss_pred             CCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Q ss_conf             46632899998730374788501234542113457767321578898888764332224577777875203204677789
Q gi|254780226|r   84 GEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLLQ  163 (367)
Q Consensus        84 G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~~  163 (367)
                      ++|+|.+||.++.+||++++|||++..         .+|.++++.+..||.                             
T Consensus        65 ~~~l~~~~l~~i~~advil~vvD~~~~---------~~~~~~~~~i~~~l~-----------------------------  106 (170)
T cd01898          65 GKGLGHRFLRHIERTRLLLHVIDLSGD---------DDPVEDYKTIRNELE-----------------------------  106 (170)
T ss_pred             CCCHHHHHHHCCCCCCEEEEEEECCCC---------CCHHHHHHHHHHHHH-----------------------------
T ss_conf             622489998613345617999989987---------898999999999999-----------------------------


Q ss_pred             HHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHH-HCCCCCCCCCC
Q ss_conf             99998899887587410344313267776210235764101001003430111010134678778864-36984033210
Q gi|254780226|r  164 SIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLAS-QQNAEMIIISA  242 (367)
Q Consensus       164 ~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~-~~~~~~i~isa  242 (367)
                                           ..+.          .+..||+++|+||.|...  .+...+...++.. ..+.+++++||
T Consensus       107 ---------------------~~~~----------~~~~kp~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~vi~iSA  153 (170)
T cd01898         107 ---------------------LYNP----------ELLEKPRIVVLNKIDLLD--EEELFELLKELLKELWGKPVFPISA  153 (170)
T ss_pred             ---------------------HHCH----------HHHCCCCEEEEEHHHCCC--HHHHHHHHHHHHHHCCCCCEEEEEC
T ss_conf             ---------------------8274----------440386506776202428--3563899999998569995899975


Q ss_pred             HHHHHHHHCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHC
Q ss_conf             024665528842677887753887422899999999872
Q gi|254780226|r  243 AIEAEISQLPEEERALFMEELDISISGLELLIRSGYRLL  281 (367)
Q Consensus       243 ~~E~ei~~l~~ee~~e~l~~~~l~~tgl~~li~~~~~lL  281 (367)
                      .                      +..|++.|.++.+++|
T Consensus       154 ~----------------------~g~gi~~L~~~I~~~L  170 (170)
T cd01898         154 L----------------------TGEGLDELLRKLAELL  170 (170)
T ss_pred             C----------------------CCCCHHHHHHHHHHHC
T ss_conf             4----------------------7979999999999669


No 22 
>KOG1489 consensus
Probab=99.96  E-value=7.9e-29  Score=214.16  Aligned_cols=159  Identities=31%  Similarity=0.542  Sum_probs=121.4

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      .+||||+||+||||++||+| .+.+.+|.|||||+.|++|.+...|                +-++.+.|+||||+|||.
T Consensus       198 dvGLVG~PNAGKSTLL~als-~AKpkVa~YaFTTL~P~iG~v~ydd----------------f~q~tVADiPGiI~GAh~  260 (366)
T KOG1489         198 DVGLVGFPNAGKSTLLNALS-RAKPKVAHYAFTTLRPHIGTVNYDD----------------FSQITVADIPGIIEGAHM  260 (366)
T ss_pred             CCCEECCCCCCHHHHHHHHH-CCCCCCCCCCEEEECCCCCEEECCC----------------CCEEEECCCCCCCCCCCC
T ss_conf             54321289886788987764-0587545542034446411251354----------------514685047653445434


Q ss_pred             CCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Q ss_conf             46632899998730374788501234542113457767321578898888764332224577777875203204677789
Q gi|254780226|r   84 GEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLLQ  163 (367)
Q Consensus        84 G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~~  163 (367)
                      +||||-+||.||..|+.|+.|||++.-..       .+|.++++.|..||-+                            
T Consensus       261 nkGlG~~FLrHiER~~~l~fVvD~s~~~~-------~~p~~~~~lL~~ELe~----------------------------  305 (366)
T KOG1489         261 NKGLGYKFLRHIERCKGLLFVVDLSGKQL-------RNPWQQLQLLIEELEL----------------------------  305 (366)
T ss_pred             CCCCCHHHHHHHHHHCEEEEEEECCCCCC-------CCHHHHHHHHHHHHHH----------------------------
T ss_conf             67654899998875334899997787555-------8878999999999999----------------------------


Q ss_pred             HHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHC-CCCCCCCCC
Q ss_conf             9999889988758741034431326777621023576410100100343011101013467877886436-984033210
Q gi|254780226|r  164 SIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQ-NAEMIIISA  242 (367)
Q Consensus       164 ~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~-~~~~i~isa  242 (367)
                               .++                       -++.||.++||||.|.+.+..+.    +++++.+- +..++++||
T Consensus       306 ---------yek-----------------------~L~~rp~liVaNKiD~~eae~~~----l~~L~~~lq~~~V~pvsA  349 (366)
T KOG1489         306 ---------YEK-----------------------GLADRPALIVANKIDLPEAEKNL----LSSLAKRLQNPHVVPVSA  349 (366)
T ss_pred             ---------HHH-----------------------HHCCCCEEEEEECCCCHHHHHHH----HHHHHHHCCCCCEEEEEE
T ss_conf             ---------865-----------------------42358538997446736678889----999998737981787640


Q ss_pred             HHHHHHHH
Q ss_conf             02466552
Q gi|254780226|r  243 AIEAEISQ  250 (367)
Q Consensus       243 ~~E~ei~~  250 (367)
                      +.+..+.+
T Consensus       350 ~~~egl~~  357 (366)
T KOG1489         350 KSGEGLEE  357 (366)
T ss_pred             CCCCCHHH
T ss_conf             04645688


No 23 
>KOG1487 consensus
Probab=99.94  E-value=9.7e-28  Score=206.80  Aligned_cols=279  Identities=24%  Similarity=0.351  Sum_probs=187.7

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      +||++|+|++||||+.+-+|+ ...+++.|.|||.---.|+.+                 +-.++||+.|+||+|+||..
T Consensus        61 ~vg~vgFPSvGksTl~~~l~g-~~s~vasyefttl~~vpG~~~-----------------y~gaKiqlldlpgiiegakd  122 (358)
T KOG1487          61 RVGFVGFPSVGKSTLLSKLTG-TFSEVAAYEFTTLTTVPGVIR-----------------YKGAKIQLLDLPGIIEGAKD  122 (358)
T ss_pred             EEEEEECCCCCHHHHHHHHCC-CCCCCCCCCCEEEEEECCEEE-----------------CCCCCEEEECCCCHHCCCCC
T ss_conf             553785376662433223018-887655433226897066674-----------------04562343048540014646


Q ss_pred             CCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHCCCHHH
Q ss_conf             466328999987303747885012345421134577673215788988887643322245777778-----752032046
Q gi|254780226|r   84 GEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNK-----KYRNHKSEE  158 (367)
Q Consensus        84 G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~-----k~~~~~~~~  158 (367)
                      |+|+|.|+++..|.|..|+.|+|+-            -|+..-..||.||.     -+.-|+.+..     +.+..+...
T Consensus       123 gkgrg~qviavartcnli~~vld~~------------kp~~hk~~ie~ele-----g~girlnk~pp~i~~kkKdkgGIn  185 (358)
T KOG1487         123 GKGRGKQVIAVARTCNLIFIVLDVL------------KPLSHKKIIEKELE-----GFGIRLNKQPPNIGTKKKDKGGIN  185 (358)
T ss_pred             CCCCCCEEEEEEECCCEEEEEEECC------------CCCCHHHHHHHHHH-----CCEEECCCCCCCCCCCCCCCCCEE
T ss_conf             7887607888830165899871106------------75217889987631-----036661488997630124447430


Q ss_pred             HHH---HHHHHHHHHHH---HHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHH
Q ss_conf             777---89999988998---875874103443132677762102357641010010034301110101346787788643
Q gi|254780226|r  159 IVL---LQSIISSSLRL---IEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQ  232 (367)
Q Consensus       159 ~~~---~~~~l~~~~~~---Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~  232 (367)
                      ...   ........+..   -+.+..+|.   +-+.|++.-..+.++.+ =|.+|+.|+.|.      ++.|++.-  .-
T Consensus       186 lt~~~LdlD~~rsil~eyR~hsAdi~Lr~---DaT~DdLIdvVegnr~y-Vp~iyvLNkIds------ISiEELdi--i~  253 (358)
T KOG1487         186 LTGTHLDLDLQRSILSEYRIHSADIALRF---DATADDLIDVVEGNRIY-VPCIYVLNKIDS------ISIEELDI--IY  253 (358)
T ss_pred             EECCHHHHHHHHHHHHHHHHCCHHEEEEC---CCCHHHHHHHHCCCCEE-EEEEEEECCCCE------EEEECCCE--EE
T ss_conf             01320027889999887643102305635---76422243220057315-665556222350------12101320--11


Q ss_pred             CCCCCCCCCCHHHHHHHHCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCEEEECCCC----CCCCCEEC-CCCCCHHH
Q ss_conf             69840332100246655288426778877538874228999999998729646610578----75454012-78676778
Q gi|254780226|r  233 QNAEMIIISAAIEAEISQLPEEERALFMEELDISISGLELLIRSGYRLLDLITYFTVGP----KETRAWTI-PRGTNAQK  307 (367)
Q Consensus       233 ~~~~~i~isa~~E~ei~~l~~ee~~e~l~~~~l~~tgl~~li~~~~~lL~li~~~tvg~----~e~~aw~i-~~GstA~d  307 (367)
                      .....+++||..+                      =.++.+.....+.|+|...||--.    +-...-.+ ..-+|..|
T Consensus       254 ~iphavpISA~~~----------------------wn~d~lL~~mweyL~LvriYtkPKgq~PDy~~pVvLs~~~~sv~d  311 (358)
T KOG1487         254 TIPHAVPISAHTG----------------------WNFDKLLEKMWEYLKLVRIYTKPKGQPPDYTSPVVLSSERRSVED  311 (358)
T ss_pred             ECCCEEECCCCCC----------------------CCHHHHHHHHHHCCHHEEEECCCCCCCCCCCCCCEECCCCCCHHH
T ss_conf             0563245245666----------------------556788988730600248853888999888877466677654999


Q ss_pred             HHHCCCCHHCCCCEEEEECCHHHHHHCCCHHHHHHCCCEECCCCEEEECCCCEEEE
Q ss_conf             51100121034836999736888774499688887496531576079654988999
Q gi|254780226|r  308 AAGVIHTDFEKGFIRALTISYKDYVAMGGENAAKEAGKARDEGKEYIVKDGDILHF  363 (367)
Q Consensus       308 ~A~~IHtDi~kgFi~A~v~~~~~~~~~~~~~~~k~~g~~r~~Gkdy~v~DGDVi~~  363 (367)
                      +|.+||+++.+-|-||.|  |...+++        ..  ..+|++|++.|.||+.+
T Consensus       312 fc~~ih~~~~~~fk~alv--wg~s~kh--------~p--q~vg~~h~l~dedvv~i  355 (358)
T KOG1487         312 FCNKIHKSILKQFKYALV--WGSSVKH--------NP--QRVGKEHVLEDEDVVQI  355 (358)
T ss_pred             HHHHHHHHHHHHHHHHEE--ECCCCCC--------CH--HHCCHHHEECCCHHHHH
T ss_conf             999999999986324057--4245676--------82--01353326133104452


No 24 
>cd01878 HflX HflX subfamily.  A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily.  The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear.  HflX is widespread, but not universally represented in all three superkingdoms.
Probab=99.89  E-value=5.1e-22  Score=168.23  Aligned_cols=87  Identities=33%  Similarity=0.585  Sum_probs=71.1

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      .|+|||.||||||||||+||+ +.+.+++|||||.+|+.+.+..++.                .++.|+|.||++.+-. 
T Consensus        43 ~VaivG~PNvGKSTLlN~L~g-~~~~v~~~~~tT~d~~~~~i~~~~~----------------~~i~l~DT~G~i~~~p-  104 (204)
T cd01878          43 TVALVGYTNAGKSTLFNALTG-ADVYAEDQLFATLDPTTRRLRLPDG----------------REVLLTDTVGFIRDLP-  104 (204)
T ss_pred             EEEEECCCCCCHHHHHHHHHC-CCCEEECCCCCCCCCEEEEEEECCC----------------CEEEEEECCCCCCCCC-
T ss_conf             799988999989999999948-9963415677645763668995699----------------7799983686446783-


Q ss_pred             CCCCHHHH---HHHHHCCCEEEEEECCCC
Q ss_conf             46632899---998730374788501234
Q gi|254780226|r   84 GEGLGNQF---LAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        84 G~GlGN~F---L~~ir~aDalihVVdaf~  109 (367)
                       .++-..|   |.++++||+++||||++.
T Consensus       105 -~~lie~~~~tle~i~~AD~il~vvD~s~  132 (204)
T cd01878         105 -HQLVEAFRSTLEEVAEADLLLHVVDASD  132 (204)
T ss_pred             -HHHHHHHHHHHHHHHHCCEEEEEEECCC
T ss_conf             -7899999999999973989999997998


No 25 
>cd01897 NOG NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans.  NOG1 is functionally linked to ribosome biogenesis and found in association with the nuclear pore complexes and identified in many preribosomal complexes.  Thus, defects in NOG1 can lead to defects in 60S biogenesis.  The S. cerevisiae NOG1 gene is essential for cell viability, and mutations in the predicted G motifs abrogate function.  It is a member of the ODN family of GTP-binding proteins that also includes the bacterial Obg and DRG proteins.
Probab=99.87  E-value=3.3e-21  Score=162.74  Aligned_cols=164  Identities=23%  Similarity=0.328  Sum_probs=110.4

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      .|.|||.||||||||||+||+ +.+.+++|||||.+++.|.+...+                 .+++|+|.||++..+++
T Consensus         2 ~VaivG~pNvGKStL~N~L~g-~~~~v~~~p~TTr~~~~~~~~~~~-----------------~~~~liDTpGi~~~~~~   63 (168)
T cd01897           2 TLVIAGYPNVGKSSLVNKLTR-AKPEVAPYPFTTKSLFVGHFDYKY-----------------LRWQVIDTPGLLDRPLE   63 (168)
T ss_pred             EEEEECCCCCCHHHHHHHHHC-CCCEECCCCCCCCCCEEEEEEECC-----------------CEEEEECCCCCCCCCHH
T ss_conf             799988999889999999958-986023758723574368999837-----------------27687248865567478


Q ss_pred             CCC-CHHHHHHHHHC-CCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHH
Q ss_conf             466-32899998730-3747885012345421134577673215788988887643322245777778752032046777
Q gi|254780226|r   84 GEG-LGNQFLAHIRE-VDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVL  161 (367)
Q Consensus        84 G~G-lGN~FL~~ir~-aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~  161 (367)
                      .++ +..+....+++ +|++++|+|++...+        .+.++                  .                 
T Consensus        64 ~~~~ie~~~~~~l~~~~d~il~viD~~~~~~--------~~~~~------------------~-----------------  100 (168)
T cd01897          64 ERNTIEMQAITALAHLRAAVLFLFDPSETCG--------YSLEE------------------Q-----------------  100 (168)
T ss_pred             HHHHHHHHHHHHHHHCCCEEEEEEECCCCCC--------CCHHH------------------H-----------------
T ss_conf             8889999999999835776899996887678--------48999------------------9-----------------


Q ss_pred             HHHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf             89999988998875874103443132677762102357641010010034301110101346787788643698403321
Q gi|254780226|r  162 LQSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIIS  241 (367)
Q Consensus       162 ~~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~is  241 (367)
                       ..++..                         ++.  ....||+++|+||.|.-..+   ......++....+.+++++|
T Consensus       101 -~~l~~~-------------------------i~~--~~~~~p~i~v~NK~Dl~~~~---~~~~~~~~~~~~~~~vi~IS  149 (168)
T cd01897         101 -LSLFEE-------------------------IKP--LFKNKPVIVVLNKIDLLTFE---DLSEIEEEEELEGEEVLKIS  149 (168)
T ss_pred             -HHHHHH-------------------------HHH--HHCCCCEEEEEECCCCCCCC---CHHHHHHHHHCCCCCEEEEE
T ss_conf             -999998-------------------------776--52588879999475345810---07999999970899889998


Q ss_pred             CHHHHHHHHCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHC
Q ss_conf             0024665528842677887753887422899999999872
Q gi|254780226|r  242 AAIEAEISQLPEEERALFMEELDISISGLELLIRSGYRLL  281 (367)
Q Consensus       242 a~~E~ei~~l~~ee~~e~l~~~~l~~tgl~~li~~~~~lL  281 (367)
                      |.                      +..|++.|.++.+++|
T Consensus       150 A~----------------------~g~Gi~~L~~~i~ell  167 (168)
T cd01897         150 TL----------------------TEEGVDEVKNKACELL  167 (168)
T ss_pred             CC----------------------CCCCHHHHHHHHHHHC
T ss_conf             15----------------------8969999999999963


No 26 
>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=99.86  E-value=4.5e-21  Score=161.85  Aligned_cols=91  Identities=27%  Similarity=0.406  Sum_probs=76.1

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      ++||.|+|+||||||||||++|+...+-+++|||||.++..|.+...+                 .+++++|.||+...+
T Consensus         1 ~~~ValvG~pN~GKStL~N~l~g~~~~ivs~~pgtTrd~~~~~~~~~~-----------------~~i~l~DTpG~~~~~   63 (157)
T cd04164           1 GIKVVIVGKPNVGKSSLLNALAGRDRAIVSDIAGTTRDVIEESIDIGG-----------------IPVRLIDTAGIRETE   63 (157)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCCEEECCCCCEEEECCEEEEEECC-----------------EEEEEEECCCCCCCC
T ss_conf             979999889999899999999689733432889847863267895399-----------------889997267754445


Q ss_pred             CCCCCCH-HHHHHHHHCCCEEEEEECCCC
Q ss_conf             2246632-899998730374788501234
Q gi|254780226|r   82 SKGEGLG-NQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        82 ~~G~GlG-N~FL~~ir~aDalihVVdaf~  109 (367)
                      +.-+..| .+.+..+.+||.++||+|++.
T Consensus        64 ~~~e~~~~~~~~~~i~~aDlil~vvD~~~   92 (157)
T cd04164          64 DEIEKIGIERAREAIEEADLVLFVIDASR   92 (157)
T ss_pred             CHHHHHHHHHHHHHCCCCCEEEEEEECCC
T ss_conf             78999999999863015767999988987


No 27 
>TIGR03156 GTP_HflX GTP-binding protein HflX. This protein family is one of a number of homologous small, well-conserved GTP-binding proteins with pleiotropic effects. Bacterial members are designated HflX, following the naming convention in Escherichia coli where HflX is encoded immediately downstream of the RNA chaperone Hfq, and immediately upstream of HflKC, a membrane-associated protease pair with an important housekeeping function. Over large numbers of other bacterial genomes, the pairing with hfq is more significant than with hflK and hlfC. The gene from Homo sapiens in this family has been named PGPL (pseudoautosomal GTP-binding protein-like).
Probab=99.84  E-value=2.9e-20  Score=156.43  Aligned_cols=87  Identities=36%  Similarity=0.601  Sum_probs=75.4

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      .++|||+||+||||+||+||+ +.+.++|+||+|.||+.+.+..|+.                -++-++|..|.|..-  
T Consensus       191 ~ValVGYTNAGKSTL~n~Lt~-~~~~~~d~lFaTLd~t~r~~~l~~~----------------~~~ll~DTVGFI~~L--  251 (351)
T TIGR03156       191 TVALVGYTNAGKSTLFNALTG-ADVYAADQLFATLDPTTRRLDLPDG----------------GEVLLTDTVGFIRDL--  251 (351)
T ss_pred             EEEEECCCCCCHHHHHHHHHH-CCCCCCCCCEEECCCCCCEEECCCC----------------CEEEEEECCCHHHHC--
T ss_conf             699966788778999999851-7764103431353673204887999----------------769998150056308--


Q ss_pred             CCCCHHHH---HHHHHCCCEEEEEECCCC
Q ss_conf             46632899---998730374788501234
Q gi|254780226|r   84 GEGLGNQF---LAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        84 G~GlGN~F---L~~ir~aDalihVVdaf~  109 (367)
                      -..|...|   |.+++.||.|+||||+|.
T Consensus       252 P~~Li~aF~sTLee~~~aDlllhVvD~S~  280 (351)
T TIGR03156       252 PHELVAAFRATLEEVREADLLLHVVDASD  280 (351)
T ss_pred             CHHHHHHHHHHHHHHHHCCEEEEEECCCC
T ss_conf             86799999999999985989999805888


No 28 
>cd01895 EngA2 EngA2 subfamily.  This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains.  Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family.  Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.
Probab=99.84  E-value=9.4e-20  Score=152.94  Aligned_cols=91  Identities=26%  Similarity=0.368  Sum_probs=74.9

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      +++|+|+|.||||||||||++|+...+.++++|+||.++..+.....+                 .++.++|.||+.+..
T Consensus         2 ~~~V~ivG~pN~GKSTL~N~l~g~~~~~vs~~pgtTr~~~~~~~~~~~-----------------~~~~~vDtpGi~~~~   64 (174)
T cd01895           2 PIRIAIIGRPNVGKSSLVNALLGEERVIVSDIAGTTRDSIDVPFEYDG-----------------KKYTLIDTAGIRRKG   64 (174)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCCEEECCCCCCEEECCEEEEEECC-----------------EEEEEEECCCCCCCC
T ss_conf             989999989999899999998389844434999915733289999999-----------------889998578842134


Q ss_pred             CCCCCCH----HHHHHHHHCCCEEEEEECCCC
Q ss_conf             2246632----899998730374788501234
Q gi|254780226|r   82 SKGEGLG----NQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        82 ~~G~GlG----N~FL~~ir~aDalihVVdaf~  109 (367)
                      +...++.    .+.++.+++||++++|||++.
T Consensus        65 ~~~~~~e~~~~~~~~~~i~~~dvil~viDa~~   96 (174)
T cd01895          65 KVEEGIEKYSVLRTLKAIERADVVLLVIDATE   96 (174)
T ss_pred             CCCCHHHHHHHHHHHHHHHHCCCEEEEEECCC
T ss_conf             42106889999999999984286589975898


No 29 
>pfam02421 FeoB_N Ferrous iron transport protein B. Escherichia coli has an iron(II) transport system (feo) which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent.
Probab=99.83  E-value=7e-20  Score=153.80  Aligned_cols=86  Identities=34%  Similarity=0.528  Sum_probs=70.9

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCC--CCC
Q ss_conf             486752888788899998740489873666867448833799768555877764218650233579998512235--432
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLV--RGA   81 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv--~gA   81 (367)
                      +|+|||+||||||||||++|| +.+.++|+||||.++..|.+...+                 .++.|+|.||+.  ...
T Consensus         1 tVaIvG~PNvGKSTLlN~L~g-~~~~Vs~~pGtTrd~~~~~~~~~~-----------------~~~~lvDTpGi~~~~~~   62 (188)
T pfam02421         1 TIALVGNPNVGKTTLFNALTG-ARQHVGNWPGVTVEKKEGTFKYKG-----------------YEIEIVDLPGTYSLSPY   62 (188)
T ss_pred             CEEEECCCCCCHHHHHHHHHC-CCCEEECCCCCCCCEEEEEEEECC-----------------EEEEEEECCCCCCCCCC
T ss_conf             989988999899999999959-996563899972333576875251-----------------67999968885014653


Q ss_pred             CCCCCCHHHHHHHHHCCCEEEEEECCC
Q ss_conf             224663289999873037478850123
Q gi|254780226|r   82 SKGEGLGNQFLAHIREVDAIIHVLRCF  108 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~aDalihVVdaf  108 (367)
                      +..++...+++.. .+||++++|||+.
T Consensus        63 ~~~e~v~~~~~~~-~~aDlvl~vvDa~   88 (188)
T pfam02421        63 SEEEKVARDYLLE-EKPDVIINVVDAT   88 (188)
T ss_pred             CHHHHHHHHHHHH-CCCCCEEEEEECC
T ss_conf             2789999999862-3687369997676


No 30 
>cd04163 Era Era subfamily.  Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria.  It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA.  It also contacts several assembly elements of the 30S subunit.  Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism.  Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding.  Both domains are important for Era function.  Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.
Probab=99.83  E-value=1.1e-19  Score=152.38  Aligned_cols=91  Identities=30%  Similarity=0.404  Sum_probs=74.3

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      +..|+|+|.||||||||||+||+...+.++++|+||.+|..|+....+                 .++.|+|.||+....
T Consensus         3 ~~~V~ivG~pN~GKSsL~N~L~~~~~a~vs~~~gtTr~~~~~~~~~~~-----------------~~~~l~DtpG~~~~~   65 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTRNRIRGIYTDDD-----------------AQIIFVDTPGIHKPK   65 (168)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCEEEECCCCCEEECCCEEEEEECC-----------------EEEEEEECCCCCCCH
T ss_conf             868999999999999999999589703323889826344236898499-----------------789999589866514


Q ss_pred             CC-CCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             22-46632899998730374788501234
Q gi|254780226|r   82 SK-GEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        82 ~~-G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      +. +..+..+++..+.+||++++|+|+..
T Consensus        66 ~~~~~~~~~~~~~~l~~~D~il~vvD~~~   94 (168)
T cd04163          66 KKLGERMVKAAWSALKDVDLVLFVVDASE   94 (168)
T ss_pred             HHHHHHHHHHHHHHHHCCCEEEEEEECCC
T ss_conf             56778999999986513655899997898


No 31 
>cd00880 Era_like Era (E. coli Ras-like protein)-like.  This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs), to the exclusion of other GTPases. TrmE is ubiquitous in bacteria and is a widespread mitochondrial protein in eukaryotes, but is absent from archaea. The yeast member of TrmE family, MSS1, is involved in mitochondrial translation; bacterial members are often present in translation-related operons.  FeoB represents an unusual adaptation of GTPases for high-affinity iron (II) transport. YihA (EngB) family of GTPases is typified by the E. coli YihA, which is an essential protein involved in cell division control.  Era is characterized by a distinct derivative of the KH domain (the pseudo-KH domain) which is located C-terminal to the GTPase domain.  EngA and its orthologs are composed of two GTPase domains and, since the se
Probab=99.83  E-value=1.2e-19  Score=152.16  Aligned_cols=87  Identities=22%  Similarity=0.237  Sum_probs=77.2

Q ss_pred             EEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCCCCC
Q ss_conf             75288878889999874048987366686744883379976855587776421865023357999851223543222466
Q gi|254780226|r    7 IIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASKGEG   86 (367)
Q Consensus         7 lvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~G~G   86 (367)
                      |||.||||||||||+||+...+.++++|+||.+|+.+.+...+.                .++.|+|.||+....+.++.
T Consensus         1 ivG~~N~GKStL~N~L~~~~~~~vs~~~gtT~~~~~~~~~~~~~----------------~~i~lvDtpG~~~~~~~~~~   64 (163)
T cd00880           1 LFGRTNAGKSSLLNALLGQEVAIVSPVPGTTTDPVEYVWELGPL----------------GPVVLIDTPGIDEAGGLGRE   64 (163)
T ss_pred             CCCCCCCCHHHHHHHHHCCCCCEECCCCCEECCCEEEEEEECCC----------------CEEEEEECCCCCCCCCHHHH
T ss_conf             91979989999999995899610169899865645899995478----------------65999727985222310168


Q ss_pred             CHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             32899998730374788501234
Q gi|254780226|r   87 LGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        87 lGN~FL~~ir~aDalihVVdaf~  109 (367)
                      +..++++.++++|++++|||+..
T Consensus        65 ~~~~~~~~~~~~D~il~viD~~~   87 (163)
T cd00880          65 REELARRVLERADLILFVVDADL   87 (163)
T ss_pred             HHHHHHHHHHHCCEEEEEEECCC
T ss_conf             99999999986898999987899


No 32 
>cd01879 FeoB Ferrous iron transport protein B (FeoB) subfamily.  E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions.  FeoB has been identified as part of this transport system.  FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent.
Probab=99.83  E-value=9e-20  Score=153.08  Aligned_cols=83  Identities=35%  Similarity=0.575  Sum_probs=69.2

Q ss_pred             EEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCC--CCCCCCC
Q ss_conf             75288878889999874048987366686744883379976855587776421865023357999851223--5432224
Q gi|254780226|r    7 IIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGL--VRGASKG   84 (367)
Q Consensus         7 lvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGL--v~gA~~G   84 (367)
                      |||.||||||||||++|+ +.+.+++|||||.+|..|.+.+.+                 .++.|+|.||+  .++.+..
T Consensus         1 ivG~pNvGKSTL~N~L~g-~~~~vs~~pgtTrd~~~~~~~~~~-----------------~~~~lvDtpGi~~~~~~~~~   62 (158)
T cd01879           1 LVGNPNVGKTTLFNALTG-ARQKVGNWPGVTVEKKEGRFKLGG-----------------KEIEIVDLPGTYSLSPYSED   62 (158)
T ss_pred             CCCCCCCCHHHHHHHHHC-CCCEECCCCCCEEEEEEEEEEECC-----------------EEEEEEECCCCCCCCCCCHH
T ss_conf             979898889999999959-986461789827634788996299-----------------37999979874125641356


Q ss_pred             CCCHHHHHHHHHCCCEEEEEECCC
Q ss_conf             663289999873037478850123
Q gi|254780226|r   85 EGLGNQFLAHIREVDAIIHVLRCF  108 (367)
Q Consensus        85 ~GlGN~FL~~ir~aDalihVVdaf  108 (367)
                      ++....++.. +++|.+++|+|++
T Consensus        63 e~i~~~~~~~-~~~d~vl~vvD~~   85 (158)
T cd01879          63 EKVARDFLLG-EKPDLIVNVVDAT   85 (158)
T ss_pred             HHHHHHHHHH-CCCCCEEEEEECC
T ss_conf             7899999985-1787179997774


No 33 
>cd01894 EngA1 EngA1 subfamily.  This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains.  Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability.  A recent report suggests that E. coli Der functions in ribosome assembly and stability.
Probab=99.80  E-value=4.9e-19  Score=148.11  Aligned_cols=87  Identities=31%  Similarity=0.369  Sum_probs=70.9

Q ss_pred             EEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCCCC
Q ss_conf             67528887888999987404898736668674488337997685558777642186502335799985122354322246
Q gi|254780226|r    6 GIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASKGE   85 (367)
Q Consensus         6 GlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~G~   85 (367)
                      .|+|.||||||||||++|+...+.++++|+||.+++.|.+...+                 .++.|+|.||+......-.
T Consensus         1 aivG~pN~GKSsL~N~l~~~~~~ivs~~~gtTr~~~~~~~~~~~-----------------~~~~lvDTpG~~~~~~~~~   63 (157)
T cd01894           1 AIVGRPNVGKSTLFNRLTGRRDAIVEDTPGVTRDRIYGEAEWGG-----------------REFILIDTGGIEPDDEGIS   63 (157)
T ss_pred             CCCCCCCCCHHHHHHHHHCCCCEEEECCCCCEEEEEEEEEEECC-----------------EEEEEEECCCCCCCCCHHH
T ss_conf             90489998899999999588753540799935667899999999-----------------8899985787555660678


Q ss_pred             C-CHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             6-32899998730374788501234
Q gi|254780226|r   86 G-LGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        86 G-lGN~FL~~ir~aDalihVVdaf~  109 (367)
                      . +-.+.+..+++||++++|+|+..
T Consensus        64 ~~~~~~~~~~i~~ad~il~viDa~~   88 (157)
T cd01894          64 KEIREQAELAIEEADVILFVVDGRE   88 (157)
T ss_pred             HHHHHHHHHHHHHCCEEEEEEECCC
T ss_conf             9999999999986590799998999


No 34 
>PRK00089 era GTP-binding protein Era; Reviewed
Probab=99.79  E-value=2.8e-18  Score=143.02  Aligned_cols=92  Identities=29%  Similarity=0.439  Sum_probs=76.9

Q ss_pred             CCCE---EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCC
Q ss_conf             9824---8675288878889999874048987366686744883379976855587776421865023357999851223
Q gi|254780226|r    1 MGFK---CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGL   77 (367)
Q Consensus         1 m~~k---iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGL   77 (367)
                      |++|   |+|||+||||||||+|++++...+-+.+.|.||.++..|+....+                 .++-|+|.||+
T Consensus         4 ~~~ksG~VaivG~PNvGKSTL~N~l~~~k~siVS~k~~TTR~~i~gi~~~~~-----------------~q~i~iDTpGi   66 (296)
T PRK00089          4 EKFKSGFVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTRHRIRGIVTEDD-----------------AQIIFVDTPGI   66 (296)
T ss_pred             CCCCEEEEEEECCCCCCHHHHHHHHHCCCEEEECCCCCCCCCCEEEEEEECC-----------------EEEEEEECCCC
T ss_conf             8983799999989998889999999689617614959987283899999799-----------------79999989986


Q ss_pred             CCCCCC-CCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             543222-46632899998730374788501234
Q gi|254780226|r   78 VRGASK-GEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        78 v~gA~~-G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      ....+. ++.+-.+.++.+.+||++++|+|++.
T Consensus        67 ~~~~~~l~~~~~~~~~~ai~~aDlil~viD~~~   99 (296)
T PRK00089         67 HKPKRALNRAMNKAAWSSLKDVDLVLFVVDADE   99 (296)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHCCEEEEEEECCC
T ss_conf             674677878999999999975999999985788


No 35 
>COG1160 Predicted GTPases [General function prediction only]
Probab=99.75  E-value=1.5e-17  Score=138.13  Aligned_cols=92  Identities=34%  Similarity=0.398  Sum_probs=78.9

Q ss_pred             CC-CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCC
Q ss_conf             98-24867528887888999987404898736668674488337997685558777642186502335799985122354
Q gi|254780226|r    1 MG-FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVR   79 (367)
Q Consensus         1 m~-~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~   79 (367)
                      |+ -.|.|||.||||||||||+||+...|-+++||=+|-|+.-|.+..-+                 -++.++|.+||.+
T Consensus         1 m~~~~VAIVGRPNVGKSTLFNRL~g~r~AIV~D~pGvTRDr~y~~~~~~~-----------------~~f~lIDTgGl~~   63 (444)
T COG1160           1 MSTPVVAIVGRPNVGKSTLFNRLTGRRIAIVSDTPGVTRDRIYGDAEWLG-----------------REFILIDTGGLDD   63 (444)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHCCEEEEEECCCCCCCCCCCCEEEECC-----------------CEEEEEECCCCCC
T ss_conf             99778999899987589999887577026760699975577545069838-----------------6079997899776


Q ss_pred             CC--CCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             32--2246632899998730374788501234
Q gi|254780226|r   80 GA--SKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        80 gA--~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      +.  .-++-+-.|-+..+.+||++|.|||+-.
T Consensus        64 ~~~~~l~~~i~~Qa~~Ai~eADvilfvVD~~~   95 (444)
T COG1160          64 GDEDELQELIREQALIAIEEADVILFVVDGRE   95 (444)
T ss_pred             CCCHHHHHHHHHHHHHHHHHCCEEEEEEECCC
T ss_conf             88128999999999999976799999984887


No 36 
>PRK00093 engA GTP-binding protein EngA; Reviewed
Probab=99.73  E-value=1.4e-16  Score=131.66  Aligned_cols=91  Identities=33%  Similarity=0.399  Sum_probs=76.0

Q ss_pred             CCCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCC
Q ss_conf             98248675288878889999874048987366686744883379976855587776421865023357999851223543
Q gi|254780226|r    1 MGFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRG   80 (367)
Q Consensus         1 m~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~g   80 (367)
                      |+ .|.|||.||||||||||+|++...+-+++.|=||-|...|.+...+                 .++.++|.||+...
T Consensus         1 ~p-~VaIvGrpNvGKStLfN~l~~~~~aIv~~~~G~TRD~~~~~~~~~~-----------------~~~~lvDT~G~~~~   62 (438)
T PRK00093          1 KP-VVAIVGRPNVGKSTLFNRLTGKRDAIVADTPGVTRDRIYGEAEWLG-----------------REFIVIDTGGIDPG   62 (438)
T ss_pred             CC-EEEEECCCCCCHHHHHHHHHCCCEEEECCCCCCCCCCEEEEEEECC-----------------EEEEEEECCCCCCC
T ss_conf             99-8999899998789999998688618715989998471589999999-----------------28999989798988


Q ss_pred             CCC--CCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             222--46632899998730374788501234
Q gi|254780226|r   81 ASK--GEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        81 A~~--G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      ...  .+-+=.|-+..+.+||++|+|||+..
T Consensus        63 ~~~~~~~~i~~q~~~ai~~aDlIlfVvD~~~   93 (438)
T PRK00093         63 DEDGFEKQMREQALLAIEEADVILFVVDGRA   93 (438)
T ss_pred             CCHHHHHHHHHHHHHHHHHCCEEEEEEECCC
T ss_conf             8207999999999999985899999983776


No 37 
>cd04938 TGS_Obg-like TGS_Obg-like: The C-terminal TGS domain of Obg-like GTPases such as those present in DRG (developmentally regulated GTP-binding protein), and GTP-binding proteins Ygr210 and YchF. The TGS domain (named after the ThrRS, GTPase, and SpoT proteins where it occurs) is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=99.72  E-value=9.6e-19  Score=146.14  Aligned_cols=65  Identities=38%  Similarity=0.540  Sum_probs=59.2

Q ss_pred             CEEEECC----------C-CCCCCCEECCCCCCHHHHHHCCCCHHCCCCEEEEECCHHHHHHCCCHHHHHHCCCEECCCC
Q ss_conf             6466105----------7-8754540127867677851100121034836999736888774499688887496531576
Q gi|254780226|r  283 LITYFTV----------G-PKETRAWTIPRGTNAQKAAGVIHTDFEKGFIRALTISYKDYVAMGGENAAKEAGKARDEGK  351 (367)
Q Consensus       283 li~~~tv----------g-~~e~~aw~i~~GstA~d~A~~IHtDi~kgFi~A~v~~~~~~~~~~~~~~~k~~g~~r~~Gk  351 (367)
                      ||.+|||          | .+.|+||++|+||||+|+|++||||++++||||+++++                  |++|+
T Consensus         1 lI~VYPV~~~~~~t~~~g~nvlpD~~Lv~~Gst~~d~A~~ih~d~~~~fi~av~g~~------------------r~eg~   62 (76)
T cd04938           1 LIPVYPVKNIHTFTNGSGGNVFRDCVLVKKGTTVGDVARKIHGDLEKGFIEAVGGRR------------------RLEGK   62 (76)
T ss_pred             CCCEEECCCCCEECCCCCCEECCCEEEECCCCCHHHHHHHHHHHHHHHHHHHHHCEE------------------EECCC
T ss_conf             943796366761027999858883699879897899999987677888998862537------------------95477


Q ss_pred             EEEECCCCEEEEEC
Q ss_conf             07965498899963
Q gi|254780226|r  352 EYIVKDGDILHFRF  365 (367)
Q Consensus       352 dy~v~DGDVi~~~f  365 (367)
                      ||+++|||||+|+.
T Consensus        63 d~~l~dgDIIkf~s   76 (76)
T cd04938          63 DVILGKNDILKFKT   76 (76)
T ss_pred             CEEECCCCEEEEEC
T ss_conf             36607899999849


No 38 
>cd01669 TGS_Ygr210_C TGS_Ygr210_C: The C-terminal TGS domain of Ygr210 GTP-binding protein which is a member of Obg-like family of GTPases, and present in archaea. Several Obg-like 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. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=99.71  E-value=4.7e-18  Score=141.48  Aligned_cols=65  Identities=31%  Similarity=0.576  Sum_probs=60.5

Q ss_pred             CEEEECC----------CCCCCCCEECCCCCCHHHHHHCCCCHHCCCCEEEEECCHHHHHHCCCHHHHHHCCCEECCCCE
Q ss_conf             6466105----------787545401278676778511001210348369997368887744996888874965315760
Q gi|254780226|r  283 LITYFTV----------GPKETRAWTIPRGTNAQKAAGVIHTDFEKGFIRALTISYKDYVAMGGENAAKEAGKARDEGKE  352 (367)
Q Consensus       283 li~~~tv----------g~~e~~aw~i~~GstA~d~A~~IHtDi~kgFi~A~v~~~~~~~~~~~~~~~k~~g~~r~~Gkd  352 (367)
                      +|++|||          |.+.|+|+++|+||||+|+||+||||||++|++|++++++                 |++|+|
T Consensus         1 ~i~VyPV~de~k~~D~~G~vLPD~~llp~GsT~~DfAy~IHTdiG~~f~~Aida~~~-----------------r~v~~d   63 (76)
T cd01669           1 MIVVYPVEDENKLTDKEGNVLPDAFLLPKGSTARDLAYAIHTDIGDGFLHAIDARTG-----------------RRVGED   63 (76)
T ss_pred             CEEEEECCCCCCCCCCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHHCCEEEEEECC-----------------CCCCCC
T ss_conf             901886576774277999998766880799948999999999987514011300058-----------------785887


Q ss_pred             EEECCCCEEEEE
Q ss_conf             796549889996
Q gi|254780226|r  353 YIVKDGDILHFR  364 (367)
Q Consensus       353 y~v~DGDVi~~~  364 (367)
                      |.|++||||+|-
T Consensus        64 ~~L~~gDvi~Iv   75 (76)
T cd01669          64 YELKHRDVIKIV   75 (76)
T ss_pred             CCCCCCCEEEEE
T ss_conf             284799999980


No 39 
>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA. EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.
Probab=99.71  E-value=3.2e-16  Score=129.15  Aligned_cols=89  Identities=30%  Similarity=0.403  Sum_probs=73.9

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      .|.|||.||||||||||+||+...+-+++.|=||-|.+.|.+..-+                 .++.++|.||+.....+
T Consensus         1 ~VaIvGrpNVGKStLfN~L~~~~~aIv~~~~G~TRD~~~~~~~~~~-----------------~~~~liDT~G~~~~~~~   63 (429)
T TIGR03594         1 VVAIVGRPNVGKSTLFNRLTGKRDAIVADTPGVTRDRKYGDAEWGG-----------------REFILIDTGGIEEDDDG   63 (429)
T ss_pred             CEEEECCCCCCHHHHHHHHHCCCEEECCCCCCCCCCCEEEEEEECC-----------------EEEEEEECCCCCCCCHH
T ss_conf             9899999998789999998788617615989988773379999999-----------------07999989898987437


Q ss_pred             -CCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             -46632899998730374788501234
Q gi|254780226|r   84 -GEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        84 -G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                       .+-+=+|-+..+.+||.+++|||+..
T Consensus        64 ~~~~~~~q~~~ai~~aDlIlfVvD~~~   90 (429)
T TIGR03594        64 LDKQIREQAEIAIEEADVILFVVDGRE   90 (429)
T ss_pred             HHHHHHHHHHHHHHHCCEEEEEEECCC
T ss_conf             899999999999986799999985776


No 40 
>PRK04213 GTP-binding protein; Provisional
Probab=99.70  E-value=3.4e-16  Score=128.92  Aligned_cols=86  Identities=27%  Similarity=0.400  Sum_probs=63.2

Q ss_pred             CCCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCC--C
Q ss_conf             98248675288878889999874048987366686744883379976855587776421865023357999851223--5
Q gi|254780226|r    1 MGFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGL--V   78 (367)
Q Consensus         1 m~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGL--v   78 (367)
                      || .|+|||.||||||||||+||+ +.+.++++|+||-++|.....                     ++-|+|+||+  .
T Consensus         1 ~P-~VaivGRpNVGKSTL~N~L~g-~k~~vs~~pg~Tr~~~~~~~~---------------------~~~~vDtPG~g~~   57 (195)
T PRK04213          1 MP-EIIFVGRSNVGKSTLIRALTG-KKVRVGKRPGVTLKPNEYDWG---------------------DFILVDLPGFGFM   57 (195)
T ss_pred             CC-EEEEECCCCCCHHHHHHHHHC-CCCCCCCCCCEEEEEEEEECC---------------------CEEEEECCCCCCC
T ss_conf             98-799976999889999999968-985134899648734588508---------------------8999999996222


Q ss_pred             CCCCCCC--CCHHHHH----HHHHCCCEEEEEECCCC
Q ss_conf             4322246--6328999----98730374788501234
Q gi|254780226|r   79 RGASKGE--GLGNQFL----AHIREVDAIIHVLRCFK  109 (367)
Q Consensus        79 ~gA~~G~--GlGN~FL----~~ir~aDalihVVdaf~  109 (367)
                      .|.+++.  .++++.+    +.++++|.+++|||+..
T Consensus        58 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vvD~~~   94 (195)
T PRK04213         58 SGVPKKVQERIKDEIVHYIEDNADRIAAAVLVVDGKS   94 (195)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHCCEEEEEEECCC
T ss_conf             4588889999999999999998851789999995786


No 41 
>PRK03003 engA GTP-binding protein EngA; Reviewed
Probab=99.70  E-value=3.5e-16  Score=128.85  Aligned_cols=89  Identities=26%  Similarity=0.291  Sum_probs=73.0

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      .|.|||.||||||||||.||+...|-+++.|=+|-|...|.+...+                 -++.++|.||+-+..+.
T Consensus        40 iVaIvGRPNVGKStLFNrL~~~~~AIV~d~pGvTRDr~~~~~~~~~-----------------~~f~lvDTgG~~~~~~~  102 (474)
T PRK03003         40 VVAVVGRPNVGKSTLVNRILGRREAVVEDIPGVTRDRVSYDAEWNG-----------------RRFVVQDTGGWEPDAKG  102 (474)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCEEEECCCCCCCCCCEEEEEEECC-----------------CEEEEEECCCCCCCHHH
T ss_conf             8999899998889999998688638805989988086368999999-----------------28999979999997478


Q ss_pred             -CCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             -46632899998730374788501234
Q gi|254780226|r   84 -GEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        84 -G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                       .+-+=+|.+..|.+||+++.|||+..
T Consensus       103 ~~~~i~~q~~~ai~eaD~IlfVvD~~~  129 (474)
T PRK03003        103 LQALVAEQAEVAMRTADAVLFVVDATV  129 (474)
T ss_pred             HHHHHHHHHHHHHHHCCEEEEEEECCC
T ss_conf             999999999999986999999996898


No 42 
>PRK09554 feoB ferrous iron transport protein B; Reviewed
Probab=99.70  E-value=1.1e-16  Score=132.20  Aligned_cols=88  Identities=32%  Similarity=0.550  Sum_probs=69.3

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCC---CC
Q ss_conf             824867528887888999987404898736668674488337997685558777642186502335799985122---35
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAG---LV   78 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaG---Lv   78 (367)
                      .++|+|+|-|||||||+||+||| ....++|||=+|.|...|.....+                 -+++++|+||   |-
T Consensus         3 ~i~IALvGNPN~GKSTLFN~LTG-~~q~VgNwPGvTVEkk~G~~~~~~-----------------~~~~ivDLPG~YSL~   64 (772)
T PRK09554          3 KLTIGLIGNPNSGKTTLFNQLTG-ARQRVGNWAGVTVERKEGQFSTTD-----------------HQVTLVDLPGTYSLT   64 (772)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHC-CCCEEECCCCCEEEEEEEEEEECC-----------------CEEEEEECCCCCCCC
T ss_conf             35699888998789999999868-998357899764742389999689-----------------469999799778699


Q ss_pred             CCCCCC----CCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             432224----6632899998730374788501234
Q gi|254780226|r   79 RGASKG----EGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        79 ~gA~~G----~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      +- |+.    +-.-.+||-+ .+.|++++||||+.
T Consensus        65 ~~-S~e~s~dE~Var~~ll~-~~pDvvvnVvDAtn   97 (772)
T PRK09554         65 TI-SSQTSLDEQIACHYILS-GDADLLINVVDASN   97 (772)
T ss_pred             CC-CCCCCCHHHHHHHHHHC-CCCCEEEEEEECCC
T ss_conf             99-97777308999998613-99989999801687


No 43 
>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=99.69  E-value=2e-16  Score=130.44  Aligned_cols=84  Identities=26%  Similarity=0.335  Sum_probs=60.2

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCC-CCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCC----
Q ss_conf             48675288878889999874048-9873666867448833799768555877764218650233579998512235----
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTA-SAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLV----   78 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~-~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv----   78 (367)
                      .|+|+|.||||||||||+||+.. .+.++++|+||.++|.....                    .++.|+|.||+.    
T Consensus         1 eIaivG~pN~GKSTL~N~L~~~~~~~~vs~~~gtTr~i~~~~~~--------------------~~~~~vDtPG~g~~~~   60 (170)
T cd01876           1 EIAFAGRSNVGKSSLINALTNRKKLARTSKTPGKTQLINFFNVN--------------------DKFRLVDLPGYGYAKV   60 (170)
T ss_pred             CEEEECCCCCCHHHHHHHHHCCCCEEEEECCCCEEEEEEEEEEC--------------------CEEEEEECCCCHHCCC
T ss_conf             98999899999999999996899627860789778520588538--------------------7799996578401016


Q ss_pred             CCC---CCCCCCHHHHHHHHHCCCEEEEEECCC
Q ss_conf             432---224663289999873037478850123
Q gi|254780226|r   79 RGA---SKGEGLGNQFLAHIREVDAIIHVLRCF  108 (367)
Q Consensus        79 ~gA---~~G~GlGN~FL~~ir~aDalihVVdaf  108 (367)
                      +..   ...+ +-.+||....++|.+++|+|+.
T Consensus        61 ~~~~~~~~~~-~~~~~l~~~~~~~~vi~viD~~   92 (170)
T cd01876          61 SKEVKEKWGK-LIEEYLENRENLKGVVLLIDSR   92 (170)
T ss_pred             CHHHHHHHHH-HHHHHHHHHHHHCEEEEEEECC
T ss_conf             8779999999-9999998406334999999632


No 44 
>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA. EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.
Probab=99.68  E-value=9.5e-16  Score=125.97  Aligned_cols=91  Identities=30%  Similarity=0.355  Sum_probs=76.8

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      +++++|||+||||||||||++++...+-+++-|-||.|+.-+.....+                 .++.++|.||+-+.+
T Consensus       172 ~iriaivGrPNvGKSTl~N~ll~~~r~ivs~~~GtTrD~i~~~~~~~~-----------------~~~~~iDTaGirkk~  234 (429)
T TIGR03594       172 PIKIAIIGRPNVGKSTLVNALLGEERVIVSDIAGTTRDSIDIPFERNG-----------------KKYLLIDTAGIRRKG  234 (429)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCEEEEEEECC-----------------EEEEEEECCCCCCCC
T ss_conf             526999748876546777776543332147999863102687999999-----------------089999898876366


Q ss_pred             CCCCCCH----HHHHHHHHCCCEEEEEECCCC
Q ss_conf             2246632----899998730374788501234
Q gi|254780226|r   82 SKGEGLG----NQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        82 ~~G~GlG----N~FL~~ir~aDalihVVdaf~  109 (367)
                      +-..++.    .+-+..|+.||+.++|+||..
T Consensus       235 k~~~~~e~~s~~~t~~~i~~~dvvil~iD~~~  266 (429)
T TIGR03594       235 KVTEGIEKYSVLRTLKAIERADVVLLVLDATE  266 (429)
T ss_pred             CCCHHHHHHHHHHHHHHHHHCCEEEEEEECCC
T ss_conf             42304779999999999874477999997665


No 45 
>PRK00093 engA GTP-binding protein EngA; Reviewed
Probab=99.65  E-value=2.3e-15  Score=123.34  Aligned_cols=91  Identities=29%  Similarity=0.382  Sum_probs=74.9

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      +++++|||+||||||||||+|++...+-+.+-|-||.|+.-......            +     -++.|+|.||+-+.+
T Consensus       172 ~iriaiiGrpNvGKStl~N~ll~~~r~ivs~~~GtTrD~i~~~~~~~------------~-----~~~~~iDTaGirkk~  234 (438)
T PRK00093        172 PIKIAIIGRPNVGKSTLINALLGEERVIVSDIAGTTRDSIDTPFERD------------G-----QKYTLIDTAGIRRRG  234 (438)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCEEEEEEEC------------C-----CEEEEEECCCCCCCC
T ss_conf             60599955888655678887654333204799985112326799989------------9-----679999898987656


Q ss_pred             CCCCCCH----HHHHHHHHCCCEEEEEECCCC
Q ss_conf             2246632----899998730374788501234
Q gi|254780226|r   82 SKGEGLG----NQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        82 ~~G~GlG----N~FL~~ir~aDalihVVdaf~  109 (367)
                      +-..++-    .+=|..|++||+.++|+||..
T Consensus       235 k~~~~iE~~s~~~t~~~i~~~dvvilviDa~~  266 (438)
T PRK00093        235 KVTEGIEKYSVIRTLKAIERADVVLLVIDATE  266 (438)
T ss_pred             CCCHHHHHHHHHHHHHHHHHCCEEEEEEECCC
T ss_conf             42137889999999999864466999997665


No 46 
>PRK03003 engA GTP-binding protein EngA; Reviewed
Probab=99.63  E-value=1.4e-14  Score=117.97  Aligned_cols=91  Identities=24%  Similarity=0.365  Sum_probs=75.8

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      +++|+|||+||||||||+|++.+...+-+.+-|-||.||.-.....            ++     -.+.|+|.||+-+.+
T Consensus       211 ~~rIAIvGrPNvGKStL~N~llg~~r~ivs~~~GTTRDsI~~~~~~------------~~-----~~~~liDTAGiRrk~  273 (474)
T PRK03003        211 PRRVALVGKPNVGKSSLLNKLAGEERSVVHDVAGTTVDPVDSLIEL------------GG-----KVWRFVDTAGLRRKV  273 (474)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCCEEECCCCCCCCCCEEEEEEE------------CC-----EEEEEEECCCCCCCC
T ss_conf             6279998089987889999985897567458998515440589999------------99-----899999898766355


Q ss_pred             CCCCCCH----HHHHHHHHCCCEEEEEECCCC
Q ss_conf             2246632----899998730374788501234
Q gi|254780226|r   82 SKGEGLG----NQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        82 ~~G~GlG----N~FL~~ir~aDalihVVdaf~  109 (367)
                      .-..++-    .+-|..|+.||+.|+|+||+.
T Consensus       274 kv~~~iE~~s~~rtl~aI~~advvilviDa~e  305 (474)
T PRK03003        274 GQASGHEFYASLRTHAAIDAAEVAVVLIDASE  305 (474)
T ss_pred             CCCCCHHHHHHHHHHHHHHHCCEEEEEEECCC
T ss_conf             33431458999999999873355799985465


No 47 
>PRK09518 bifunctional cytidylate kinase/GTP-binding protein; Reviewed
Probab=99.61  E-value=1.4e-14  Score=117.97  Aligned_cols=89  Identities=27%  Similarity=0.294  Sum_probs=71.1

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC-
Q ss_conf             4867528887888999987404898736668674488337997685558777642186502335799985122354322-
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS-   82 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~-   82 (367)
                      .|.|||.||||||||||.+++...|=++++|=+|-|-..+.+..-+                 -++.++|.+|+.+... 
T Consensus       281 ~VAIVGRPNVGKSTLFNRL~g~r~AIV~d~pGvTRDR~~~~~~~~~-----------------~~F~lvDTGG~~~~~~~  343 (714)
T PRK09518        281 TVAIVGRPNVGKSTLVNRILGRREAVVEDTPGVTRDRVSYDAEWAG-----------------RDFKLVDTGGWEADAEG  343 (714)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCEEEECCCCCCCCCCCEEEEEECC-----------------EEEEEEECCCCCCCCHH
T ss_conf             7999899987689999886288416846989988375557999999-----------------16999979999988326


Q ss_pred             CCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             246632899998730374788501234
Q gi|254780226|r   83 KGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        83 ~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      -....-.|....|.+||++|+|||+-.
T Consensus       344 ~~~~I~~Q~~~Ai~eADlIlFVVD~~~  370 (714)
T PRK09518        344 IEAAIASQAEIAMTLADAIVFVVDGQV  370 (714)
T ss_pred             HHHHHHHHHHHHHHHCCEEEEEEECCC
T ss_conf             999999999999996899999996897


No 48 
>PRK11058 putative GTPase HflX; Provisional
Probab=99.61  E-value=4.4e-15  Score=121.47  Aligned_cols=87  Identities=31%  Similarity=0.524  Sum_probs=75.2

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      .++|||++|+||||+||+||+ +.+.++|..|+|.||.+..+..|+.                -++-+.|.-|.|.+-..
T Consensus       199 ~ValVGYTNAGKSTL~n~Lt~-~~v~~~d~LFATLD~t~R~~~l~~~----------------~~~lltDTVGFI~~LP~  261 (426)
T PRK11058        199 TVSLVGYTNAGKSTLFNRITE-ARVYAADQLFATLDPTLRRIDVADV----------------GETVLADTVGFIRHLPH  261 (426)
T ss_pred             EEEEECCCCCCHHHHHHHHHC-CCCCCCCCCCCCCCCCEEEEECCCC----------------CEEEEECCCHHHHHCCH
T ss_conf             699973577778999877752-8876325450147862026786999----------------86999715066651989


Q ss_pred             CCCCHHHH---HHHHHCCCEEEEEECCCC
Q ss_conf             46632899---998730374788501234
Q gi|254780226|r   84 GEGLGNQF---LAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        84 G~GlGN~F---L~~ir~aDalihVVdaf~  109 (367)
                        .|-..|   |..+..||.|+||||+|.
T Consensus       262 --~LveAF~sTLeEv~~ADlLLhVvD~S~  288 (426)
T PRK11058        262 --DLVAAFKATLQETRQATLLLHVIDAAD  288 (426)
T ss_pred             --HHHHHHHHHHHHHHCCCEEEEEEECCC
T ss_conf             --999999999999963988999984999


No 49 
>PRK00454 engB GTPase EngB; Reviewed
Probab=99.60  E-value=6.8e-15  Score=120.17  Aligned_cols=83  Identities=29%  Similarity=0.374  Sum_probs=51.8

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCC-CCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCC-
Q ss_conf             248675288878889999874048-987366686744883379976855587776421865023357999851223543-
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTA-SAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRG-   80 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~-~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~g-   80 (367)
                      -+|+|||.||||||||||+|||.. .|-++++|-||.+-|....                    ..++.|+|.||.  | 
T Consensus        25 p~VaivGrpNvGKSTL~N~L~g~k~~a~vs~~pgtTr~i~~~~~--------------------~~~~~lvDtpGy--G~   82 (196)
T PRK00454         25 PEIAFAGRSNVGKSSLINALTNRKNLARTSKTPGRTQLINFFEV--------------------NDGLRLVDLPGY--GY   82 (196)
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCEEEEECCCCCEEEEEEEEC--------------------CCCEEEEECCCC--CC
T ss_conf             68999848988899999998689736997478886079888761--------------------883389937997--41


Q ss_pred             CC---CCCC----CHHHHHHHHHCCCEEEEEECC
Q ss_conf             22---2466----328999987303747885012
Q gi|254780226|r   81 AS---KGEG----LGNQFLAHIREVDAIIHVLRC  107 (367)
Q Consensus        81 A~---~G~G----lGN~FL~~ir~aDalihVVda  107 (367)
                      |.   +.+.    +=..||..-.+.++++++||+
T Consensus        83 a~~~~~~~~~~~~~i~~yl~~~~~l~~villIDa  116 (196)
T PRK00454         83 AKVSKEEKEKWQKLIEEYLQKRENLKGVVLLIDS  116 (196)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHCCCEEEEEEEC
T ss_conf             3277878889999999999962333638999971


No 50 
>TIGR00437 feoB ferrous iron transport protein B; InterPro: IPR003373 Escherichia coli has an iron(II) transport system (feo) which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system and may play a role in the transport of ferrous iron. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent .; GO: 0005525 GTP binding, 0015093 ferrous iron transmembrane transporter activity, 0015684 ferrous iron transport, 0009276 1-2nm peptidoglycan-based cell wall, 0016021 integral to membrane.
Probab=99.60  E-value=4.2e-15  Score=121.58  Aligned_cols=82  Identities=33%  Similarity=0.542  Sum_probs=64.4

Q ss_pred             ECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCC---CCCCCCCC
Q ss_conf             288878889999874048987366686744883379976855587776421865023357999851223---54322246
Q gi|254780226|r    9 GLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGL---VRGASKGE   85 (367)
Q Consensus         9 G~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGL---v~gA~~G~   85 (367)
                      |=||||||||||+||| +...++|||=+|.|=-.|.....+                 -+|++||.||.   .+..+.-+
T Consensus         1 GNPNVGKStlFN~LTG-~~~~vGNwPG~TVek~eg~l~~~g-----------------~~i~ivDLPG~YSL~~~S~~dE   62 (733)
T TIGR00437         1 GNPNVGKSTLFNALTG-ANQKVGNWPGVTVEKKEGKLKFQG-----------------EDIEIVDLPGIYSLTTFSGLDE   62 (733)
T ss_pred             CCCCCHHHHHHHHHHC-CCEEEEECCCCEEEEEEEEEEECC-----------------EEEEEEECCCCCCCCCCCCCHH
T ss_conf             9998158999987415-870787358870787788975246-----------------2789984487300589987427


Q ss_pred             CCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             632899998730374788501234
Q gi|254780226|r   86 GLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        86 GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      ---..||- --++|.+||||||+.
T Consensus        63 ~v~~dyl~-~e~~DLv~nVVDA~n   85 (733)
T TIGR00437        63 KVARDYLL-NEKPDLVVNVVDASN   85 (733)
T ss_pred             HHHHHHHH-CCCCCEEEEEECHHH
T ss_conf             99989975-389967999725667


No 51 
>PRK09518 bifunctional cytidylate kinase/GTP-binding protein; Reviewed
Probab=99.59  E-value=4.7e-14  Score=114.53  Aligned_cols=91  Identities=30%  Similarity=0.377  Sum_probs=74.2

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      ++||+|||+||||||||+|+|.+...+-+.+-|=||.||.-.....            +++     ++.|+|.||+-+-.
T Consensus       452 ~~rIAIIGRPNVGKSTLiN~LlgeeR~IVs~iaGTTRDsId~~~~~------------~g~-----~~~lIDTAGiRkk~  514 (714)
T PRK09518        452 LRRVALVGRPNVGKSSLLNQLTREERAVVNDLAGTTRDPVDEIVNI------------DGK-----DWLFVDTAGIRRKQ  514 (714)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCEEEECCCCCCEECEEEEEEEE------------CCE-----EEEEEECHHCCCCC
T ss_conf             7358886699887899999996897588568898502305567999------------997-----89999860015244


Q ss_pred             CCCCCCH----HHHHHHHHCCCEEEEEECCCC
Q ss_conf             2246632----899998730374788501234
Q gi|254780226|r   82 SKGEGLG----NQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        82 ~~G~GlG----N~FL~~ir~aDalihVVdaf~  109 (367)
                      +...|+-    .+=+..|+.||+.+.|+||+.
T Consensus       515 k~~~~iE~~S~~rt~~aI~~adVvllviDA~~  546 (714)
T PRK09518        515 KKLTGAEYYASLRTQAAIERCELALILFDASQ  546 (714)
T ss_pred             CCCCCCCHHHHHHHHHHHHHCCEEEEEEECCC
T ss_conf             32543227999999998865889999986776


No 52 
>COG1159 Era GTPase [General function prediction only]
Probab=99.57  E-value=5.7e-14  Score=113.96  Aligned_cols=92  Identities=34%  Similarity=0.474  Sum_probs=75.8

Q ss_pred             CCCE---EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCC
Q ss_conf             9824---8675288878889999874048987366686744883379976855587776421865023357999851223
Q gi|254780226|r    1 MGFK---CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGL   77 (367)
Q Consensus         1 m~~k---iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGL   77 (367)
                      |+||   ++|||.||||||||.|++-|...+=+++-|-||-..-.|++.-++                 .+|-|+|+||+
T Consensus         2 ~~~ksGfVaIiGrPNvGKSTLlN~l~G~KisIvS~k~QTTR~~I~GI~t~~~-----------------~QiIfvDTPGi   64 (298)
T COG1159           2 MKFKSGFVAIIGRPNVGKSTLLNALVGQKISIVSPKPQTTRNRIRGIVTTDN-----------------AQIIFVDTPGI   64 (298)
T ss_pred             CCCEEEEEEEECCCCCCHHHHHHHHHCCCEEEECCCCCHHHHHEEEEEECCC-----------------CEEEEEECCCC
T ss_conf             9736899999869987689999898568257515985311442147998698-----------------44999848988


Q ss_pred             CCC-CCCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             543-22246632899998730374788501234
Q gi|254780226|r   78 VRG-ASKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        78 v~g-A~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      -+- ..-|+-|-....+.+..||++++|||+..
T Consensus        65 h~pk~~l~~~m~~~a~~sl~dvDlilfvvd~~~   97 (298)
T COG1159          65 HKPKHALGELMNKAARSALKDVDLILFVVDADE   97 (298)
T ss_pred             CCCCHHHHHHHHHHHHHHHCCCCEEEEEEECCC
T ss_conf             876517889999999987245759999986665


No 53 
>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB. Members of this protein family are a GTPase associated with ribosome biogenesis, typified by YsxC from Bacillus subutilis. The family is widely but not universally distributed among bacteria. Members commonly are called EngB based on homology to EngA, one of several other GTPases of ribosome biogenesis. Cutoffs as set find essentially all bacterial members, but also identify large numbers of eukaryotic (probably organellar) sequences. This protein is found in about 80 percent of bacterial genomes.
Probab=99.49  E-value=1e-13  Score=112.18  Aligned_cols=55  Identities=36%  Similarity=0.377  Sum_probs=40.9

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCC-CCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCC
Q ss_conf             2486752888788899998740489-87366686744883379976855587776421865023357999851223
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTAS-AQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGL   77 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~-~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGL   77 (367)
                      -+|.|||.||||||||||+|++... +.+++.|-||.+-|...+                    ..++.|+|.||.
T Consensus        19 p~IaivGrpNvGKSTL~N~L~g~k~~a~vs~~pGtTr~i~~~~~--------------------~~~~~lvDtpGy   74 (179)
T TIGR03598        19 PEIAFAGRSNVGKSSLINALTNRKKLARTSKTPGRTQLINFFEV--------------------NDGFRLVDLPGY   74 (179)
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCEEEECCCCCEEEECCEEEE--------------------CCCEEEEECCCH
T ss_conf             78999869998889999998689855897089973660232010--------------------473699977760


No 54 
>COG1084 Predicted GTPase [General function prediction only]
Probab=99.46  E-value=4.4e-13  Score=107.98  Aligned_cols=58  Identities=36%  Similarity=0.544  Sum_probs=50.5

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCC
Q ss_conf             4867528887888999987404898736668674488337997685558777642186502335799985122354
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVR   79 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~   79 (367)
                      ++=+.|.||||||||.+++|+ +.+|+|.|||||-.-|+|...-.                 +-++|++|.|||.-
T Consensus       170 TivVaG~PNVGKSSlv~~lT~-AkpEvA~YPFTTK~i~vGhfe~~-----------------~~R~QvIDTPGlLD  227 (346)
T COG1084         170 TIVVAGYPNVGKSSLVRKLTT-AKPEVAPYPFTTKGIHVGHFERG-----------------YLRIQVIDTPGLLD  227 (346)
T ss_pred             EEEEECCCCCCHHHHHHHHHC-CCCCCCCCCCCCCCEEEEEEECC-----------------CCEEEEECCCCCCC
T ss_conf             389856998758999988754-89766788853365467655048-----------------70589842886457


No 55 
>COG2262 HflX GTPases [General function prediction only]
Probab=99.44  E-value=1.5e-13  Score=111.09  Aligned_cols=87  Identities=33%  Similarity=0.588  Sum_probs=67.9

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      .++|||++|+||||+||+||+ +.+..+|-.|+|.+|..-.+.++|.+                .+-+.|.=|.|.+=--
T Consensus       194 ~vaLvGYTNAGKSTL~N~LT~-~~~~~~d~LFATLdpttR~~~l~~g~----------------~vlLtDTVGFI~~LP~  256 (411)
T COG2262         194 LVALVGYTNAGKSTLFNALTG-ADVYVADQLFATLDPTTRRIELGDGR----------------KVLLTDTVGFIRDLPH  256 (411)
T ss_pred             EEEEEEECCCCHHHHHHHHHC-CCEECCCCCCCCCCCCEEEEEECCCC----------------EEEEECCCCCCCCCCH
T ss_conf             589873234449999988724-57130466642105740489807996----------------4998657567155986


Q ss_pred             CCCCHHHH---HHHHHCCCEEEEEECCCC
Q ss_conf             46632899---998730374788501234
Q gi|254780226|r   84 GEGLGNQF---LAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        84 G~GlGN~F---L~~ir~aDalihVVdaf~  109 (367)
                        -|=-.|   |..+.+||+|+||||+|+
T Consensus       257 --~LV~AFksTLEE~~~aDlllhVVDaSd  283 (411)
T COG2262         257 --PLVEAFKSTLEEVKEADLLLHVVDASD  283 (411)
T ss_pred             --HHHHHHHHHHHHHHCCCEEEEEEECCC
T ss_conf             --799999998987622777999740688


No 56 
>cd04171 SelB SelB subfamily.  SelB is an elongation factor needed for the co-translational incorporation of selenocysteine.  Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin.  In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu).  It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons.  In E. coli SelB binds GTP, selenocysteyl-tRNAsec, and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence).  The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation.  Archaeal and animal mechanisms of selenocysteine incorporation are more complex.  Although the SECIS elements have different secondary structures and conserved elements between archaea and eukaryo
Probab=99.40  E-value=5.3e-12  Score=100.72  Aligned_cols=84  Identities=24%  Similarity=0.345  Sum_probs=56.0

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCC--CCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCC
Q ss_conf             2486752888788899998740489--87366686744883379976855587776421865023357999851223543
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTAS--AQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRG   80 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~--~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~g   80 (367)
                      |=||++|.||+|||||+|+|||...  ......+.+|+++.......++           +     -++.|+|.||    
T Consensus         1 ~vVaivG~~n~GKSTL~n~L~g~~~d~~~~e~~~giTi~~~~~~~~~~~-----------~-----~~i~~iDtPG----   60 (164)
T cd04171           1 MIIGTAGHIDHGKTTLIKALTGIETDRLPEEKKRGITIDLGFAYLDLPS-----------G-----KRLGFIDVPG----   60 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCCCCHHHHCCCEEEEEEEEEEECCC-----------C-----CEEEEEECCC----
T ss_conf             9999992688729999999849646633333348637985468786489-----------9-----8999994878----


Q ss_pred             CCCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             22246632899998730374788501234
Q gi|254780226|r   81 ASKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        81 A~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                       |+  -+-...++.++.+|+.++||||.+
T Consensus        61 -h~--~~~~~~~~~~~~aD~~llVvda~~   86 (164)
T cd04171          61 -HE--KFIKNMLAGAGGIDLVLLVVAADE   86 (164)
T ss_pred             -HH--HHHHHHHHHHHHCCEEEEEEECCC
T ss_conf             -79--999999998742672589986177


No 57 
>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]
Probab=99.39  E-value=1.2e-12  Score=105.08  Aligned_cols=90  Identities=32%  Similarity=0.526  Sum_probs=69.2

Q ss_pred             CCCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCC--
Q ss_conf             982486752888788899998740489873666867448833799768555877764218650233579998512235--
Q gi|254780226|r    1 MGFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLV--   78 (367)
Q Consensus         1 m~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv--   78 (367)
                      |..+++++|-|||||||+||++|| +...++|||=+|.|--.|......                 -+++++|.||.=  
T Consensus         2 ~~~~valvGNPNvGKTtlFN~LTG-~~q~VgNwpGvTVEkkeg~~~~~~-----------------~~i~ivDLPG~YSL   63 (653)
T COG0370           2 KKLTVALVGNPNVGKTTLFNALTG-ANQKVGNWPGVTVEKKEGKLKYKG-----------------HEIEIVDLPGTYSL   63 (653)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHC-CCCEECCCCCCEEEEEEEEEEECC-----------------CEEEEEECCCCCCC
T ss_conf             864389856998548999999856-674654789806998788997358-----------------54899868975658


Q ss_pred             CCCCCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             4322246632899998730374788501234
Q gi|254780226|r   79 RGASKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        79 ~gA~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      -..|+.+---..||- =-+.|++++||||+.
T Consensus        64 ~~~S~DE~Var~~ll-~~~~D~ivnVvDA~n   93 (653)
T COG0370          64 TAYSEDEKVARDFLL-EGKPDLIVNVVDATN   93 (653)
T ss_pred             CCCCCHHHHHHHHHH-CCCCCEEEEEECCCH
T ss_conf             889920899999986-389988999602323


No 58 
>pfam01926 MMR_HSR1 GTPase of unknown function.
Probab=99.39  E-value=9.1e-13  Score=105.86  Aligned_cols=79  Identities=47%  Similarity=0.724  Sum_probs=69.9

Q ss_pred             CHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCCCCC-CHHHHH
Q ss_conf             8889999874048987366686744883379976855587776421865023357999851223543222466-328999
Q gi|254780226|r   14 GKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASKGEG-LGNQFL   92 (367)
Q Consensus        14 GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~G~G-lGN~FL   92 (367)
                      |||||||+|++...+.++++|+||.+|+.+.+...+                 .++.|+|.||+....+.+.. ++++++
T Consensus         1 GKSsLiN~L~~~~~~~v~~~~gtT~~~~~~~~~~~~-----------------~~i~liDTPGi~~~~~~~~~~~~~~~~   63 (106)
T pfam01926         1 GKSTLINALTGKKRAIVSDYPGTTRDPNEGRVELDG-----------------KQIILVDTPGIIEGASKGEGELGNRTL   63 (106)
T ss_pred             CHHHHHHHHHCCCCEEECCCCCCCCCCEEEEEEECC-----------------EEEEEEECCCCCCCCCHHHHHHHHHHH
T ss_conf             912799999788855552889988463558998899-----------------889998378732265046788899999


Q ss_pred             HHHHCCCEEEEEECCCC
Q ss_conf             98730374788501234
Q gi|254780226|r   93 AHIREVDAIIHVLRCFK  109 (367)
Q Consensus        93 ~~ir~aDalihVVdaf~  109 (367)
                      ..++++|++++|+|+..
T Consensus        64 ~~~~~~d~il~viD~~~   80 (106)
T pfam01926        64 EAIEEADLILHVVDASE   80 (106)
T ss_pred             HHCCCCCEEEEEEECCC
T ss_conf             72345737999999999


No 59 
>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed
Probab=99.38  E-value=2.9e-12  Score=102.46  Aligned_cols=92  Identities=28%  Similarity=0.378  Sum_probs=73.2

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      ++++.|+|+||||||||||+|++-..|=+.+.|=||-|.--+.+.+..                 ..+.|+|.|||=.-.
T Consensus       216 G~~v~i~G~PN~GKSSL~N~L~~~drAIVS~ipGTTRD~ie~~l~l~G-----------------~~v~l~DTAGiR~t~  278 (445)
T PRK05291        216 GLKVVIAGRPNVGKSSLLNALLGEERAIVTDIAGTTRDVIEEHINLDG-----------------IPLRLIDTAGIRETE  278 (445)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCCEEECCCCCCCCCEEEEEEEECC-----------------EEEEEEECCCCCCCC
T ss_conf             986998899987689999998578746731899974040223689999-----------------899999899766557


Q ss_pred             CCCCCCH-HHHHHHHHCCCEEEEEECCCCC
Q ss_conf             2246632-8999987303747885012345
Q gi|254780226|r   82 SKGEGLG-NQFLAHIREVDAIIHVLRCFKD  110 (367)
Q Consensus        82 ~~G~GlG-N~FL~~ir~aDalihVVdaf~~  110 (367)
                      ..=+-+| .+=+..+.+||.+++|+|++..
T Consensus       279 d~IE~~GI~ra~~~~~~ADlil~v~D~s~~  308 (445)
T PRK05291        279 DEVEKIGIERSRKAIEEADLVLLVLDASEP  308 (445)
T ss_pred             CHHHHHHHHHHHHHHHHCCEEEEEEECCCC
T ss_conf             458899999999999839999999879988


No 60 
>pfam10662 PduV-EutP Ethanolamine utilisation - propanediol utilisation. Members of this family function in ethanolamine and propanediol degradation pathways, however the exact roles of these proteins is poorly understood.
Probab=99.35  E-value=3.4e-12  Score=101.95  Aligned_cols=75  Identities=20%  Similarity=0.205  Sum_probs=53.6

Q ss_pred             CCCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCC
Q ss_conf             98248675288878889999874048987366686744883379976855587776421865023357999851223543
Q gi|254780226|r    1 MGFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRG   80 (367)
Q Consensus         1 m~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~g   80 (367)
                      |. ||.|||.||||||||||++.|. .. +.+-|-||                            ..+..++|.||.-. 
T Consensus         1 Mk-kVaivGrpNvGKSTLlN~L~g~-~i-~~~K~qtt----------------------------~~~~~~IDTPG~~~-   48 (143)
T pfam10662         1 MK-KIMLIGRSGCGKTTLTQALNGE-EL-KYKKTQAI----------------------------EFSDNMIDTPGEYL-   48 (143)
T ss_pred             CC-EEEEECCCCCCHHHHHHHHCCC-CE-EECCCEEE----------------------------EECCCEEECCCCCC-
T ss_conf             97-5999899999999999997599-44-51787079----------------------------85574899987665-


Q ss_pred             CCCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             22246632899998730374788501234
Q gi|254780226|r   81 ASKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        81 A~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                        +.+-+....+..+.+||+++.|||+..
T Consensus        49 --~~~~~~~~~~~~~~daDvil~vvDa~~   75 (143)
T pfam10662        49 --ENRRFYSALIVTAADADVIALVQDATE   75 (143)
T ss_pred             --CCHHHHHHHHHHHHHCCEEEEEEECCC
T ss_conf             --628999999999964999999987788


No 61 
>cd01887 IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily.  IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits.  As seen in other GTPases, IF2/IF5B undergoes conformational changes between its GTP- and GDP-bound states.  Eukaryotic IF2/eIF5Bs possess three characteristic segments, including a divergent N-terminal region followed by conserved central and C-terminal segments.  This core region is conserved among all known eukaryotic and archaeal IF2/eIF5Bs and eubacterial IF2s.
Probab=99.29  E-value=9.4e-11  Score=92.26  Aligned_cols=84  Identities=21%  Similarity=0.290  Sum_probs=52.1

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      .|+|+|.||+|||||||++++. .......+.+|.+  ++...++..       .+++     -++.|+|.||     |+
T Consensus         2 ~VaivG~~n~GKSTL~n~L~~~-~~~~~~~~g~T~~--i~~~~~~~~-------~~~~-----~~i~~iDTPG-----h~   61 (168)
T cd01887           2 VVTVMGHVDHGKTTLLDKIRKT-NVAAGEAGGITQH--IGAFEVPAE-------VLKI-----PGITFIDTPG-----HE   61 (168)
T ss_pred             EEEEEECCCCCHHHHHHHHHCC-CCCEEECCCCEEE--ECEEEEEEE-------ECCC-----CEEEEEECCC-----CH
T ss_conf             8999948998598999998586-7504516981687--153999988-------2588-----7189998998-----16


Q ss_pred             CCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             46632899998730374788501234
Q gi|254780226|r   84 GEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        84 G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      -  ..+.--...+.||..++|||+..
T Consensus        62 ~--f~~~~~~~~~~aD~~ilvvda~~   85 (168)
T cd01887          62 A--FTNMRARGASLTDIAILVVAADD   85 (168)
T ss_pred             H--HHHHHHHHHHHCCEEEEEEECCC
T ss_conf             7--79999999862688999986466


No 62 
>cd01666 TGS_DRG_C TGS_DRG_C:   DRG (developmentally regulated GTP-binding protein) represents a family of GTP-binding proteins that includes two members, DRG1 and DRG2. DRG1 and DRG2 have a C-terminal TGS domain (named after the ThrRS, GTPase, and SpoT proteins where it occurs) with a predominantly beta-sheet structure. The function of TGS is unknown but its presence in two types of regulatory proteins (the DRG GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=99.25  E-value=5.1e-12  Score=100.78  Aligned_cols=69  Identities=25%  Similarity=0.389  Sum_probs=56.8

Q ss_pred             CEEEECCC----CCCCCCEECCCCCCHHHHHHCCCCHHCCCCEEEEECCHHHHHHCCCHHHHHHCCCEECCCCEEEECCC
Q ss_conf             64661057----87545401278676778511001210348369997368887744996888874965315760796549
Q gi|254780226|r  283 LITYFTVG----PKETRAWTIPRGTNAQKAAGVIHTDFEKGFIRALTISYKDYVAMGGENAAKEAGKARDEGKEYIVKDG  358 (367)
Q Consensus       283 li~~~tvg----~~e~~aw~i~~GstA~d~A~~IHtDi~kgFi~A~v~~~~~~~~~~~~~~~k~~g~~r~~Gkdy~v~DG  358 (367)
                      +|++||--    |+..++.++++|||+.|+|.+||+||.+.|.||.|...  .        +|..|+  ++|+||+|+|+
T Consensus         1 liRVYtK~~g~~~d~~~P~il~~gsTV~d~~~~iH~~l~~~fkyA~VWG~--S--------~K~~~Q--rVG~~H~L~D~   68 (75)
T cd01666           1 LIRVYTKPKGQEPDFDEPVILRRGSTVEDVCNKIHKDLVKQFKYALVWGS--S--------VKHSPQ--RVGLDHVLEDE   68 (75)
T ss_pred             CEEEEECCCCCCCCCCCCEEECCCCCHHHHHHHHHHHHHHHCCEEEEECC--C--------CCCCCC--CCCCCCEECCC
T ss_conf             97997379999999888978569995999999999999854788999567--7--------573853--73898573689


Q ss_pred             CEEEE
Q ss_conf             88999
Q gi|254780226|r  359 DILHF  363 (367)
Q Consensus       359 DVi~~  363 (367)
                      |||+|
T Consensus        69 DVV~I   73 (75)
T cd01666          69 DVVQI   73 (75)
T ss_pred             CEEEE
T ss_conf             89998


No 63 
>pfam00009 GTP_EFTU Elongation factor Tu GTP binding domain. This domain contains a P-loop motif, also found in several other families such as pfam00071, pfam00025 and pfam00063. Elongation factor Tu consists of three structural domains, this plus two C-terminal beta barrel domains.
Probab=99.23  E-value=7.7e-11  Score=92.87  Aligned_cols=96  Identities=21%  Similarity=0.265  Sum_probs=55.2

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHH-H-HCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776-4-218650233579998512235432
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLA-E-IAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~-~-~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      .++|+|.||+|||||+|+|++ ....+......|..+..  -..++++-.-.. + .+-....-..++.|+|.||-..  
T Consensus         5 nVaivG~~n~GKSTL~n~Ll~-~~~~i~~~~~~~~~~~~--d~~~~E~~rgiTi~~~~~~~~~~~~~i~~iDtPGh~~--   79 (185)
T pfam00009         5 NIGIIGHVDHGKTTLTDALLY-VTGAIDKRGEVKQEGEL--DRLKEERERGITIKIAAVSFETKKRHINIIDTPGHVD--   79 (185)
T ss_pred             EEEEECCCCCCHHHHHHHHHH-HCCCCCCCCCCCCCCCC--CCCHHHHHCCEEEEEEEEEEEECCCEEEEEECCCCCC--
T ss_conf             899993899449999999971-54876546431003333--6558888578269876999960893689998998714--


Q ss_pred             CCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             2246632899998730374788501234
Q gi|254780226|r   82 SKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                           .-...+.-++.||+.+.||||..
T Consensus        80 -----f~~~~~~~l~~aD~~vlVvda~~  102 (185)
T pfam00009        80 -----FTKEMIRGAAQADGAILVVDAVE  102 (185)
T ss_pred             -----HHHHHHHHHHHCCCCEEEEECCC
T ss_conf             -----39999999864656429998676


No 64 
>TIGR00450 thdF tRNA modification GTPase TrmE; InterPro: IPR004520   The GTP-binding domain of all TrmE/ThdF orthologues is found in the C-terminal portion of the molecule. The N-terminal half can be removed without affecting the GTP-binding/hydrolysis function of the GTP-binding domain. The last four amino acids of all orthologues of ThdF/TrmE are highly conserved, being either CIGK or CLGK. This matches the Caax (where 'a' represents an aliphatic amino acid, and 'x' represents any amino acid) motif for isoprenylation that anchors small GTP-binding proteins to cell membranes in eukaryotic cells. However, protein isoprenylation has never been shown to occur in bacteria. Interestingly, biochemical experiments have shown that the Escherichia coli TrmE protein peripherally associates with the membrane fraction .    Although the biochemical properties of TrmE have been investigated for the E. coli and Thermotoga maritima proteins, nothing is known about the relationship of this protein to tRNA modification. Orthologues of TrmE are present in eukaryotes and bacteria, but are not present in archaea. In Saccharomyces cerevisiae, Mss1p is a nuclear-encoded mitochondrial protein that is the yeast orthologue of TrmE. Mss1p interacts with the 15S rRNA of the yeast mitochondria, which is equivalent to the 16S rRNA of bacteria. Subsequent analysis of the S. cerevisiae MTO1 gene suggests that MSS1 and MTO1 act together in a pathway involved in optimizing mitochondrial protein synthesis.    TrmE may play a role in tRNA processing and may be directly or indirectly involved in regulating ribosome function.; GO: 0003924 GTPase activity, 0005525 GTP binding, 0006400 tRNA modification, 0005622 intracellular.
Probab=99.23  E-value=5.1e-11  Score=94.08  Aligned_cols=92  Identities=34%  Similarity=0.479  Sum_probs=78.7

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      |+|+.|||.||||||+||||+-....|=+.+||=||-|--=+...+.                 ...|+++|.||+=+-+
T Consensus       225 g~k~ai~G~~NvGKSSLLNa~l~~DrAiVS~~kGtTRD~vE~~~~L~-----------------G~~~~~lDTAGiR~~~  287 (473)
T TIGR00450       225 GFKLAIVGKPNVGKSSLLNALLKQDRAIVSDIKGTTRDVVEGDFELN-----------------GILVKLLDTAGIREHA  287 (473)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHCCCEEEECCCCCCCCEEEEEEEEC-----------------CEEEEEEECCCCCCCH
T ss_conf             94799964788757899998762287055276688320442057774-----------------6789985146751020


Q ss_pred             CCCCCCH-HHHHHHHHCCCEEEEEECCCCC
Q ss_conf             2246632-8999987303747885012345
Q gi|254780226|r   82 SKGEGLG-NQFLAHIREVDAIIHVLRCFKD  110 (367)
Q Consensus        82 ~~G~GlG-N~FL~~ir~aDalihVVdaf~~  110 (367)
                      +.=+-+| .|=+.-|.+||.+|+|+|++..
T Consensus       288 ~~~E~~GiekS~~~i~~A~LVi~~~D~~~~  317 (473)
T TIGR00450       288 DKVERLGIEKSFKAIKQADLVIYVLDASQP  317 (473)
T ss_pred             HHHHHHHHHHHHHHHHHCCEEEEEEECCCC
T ss_conf             046677689989998605734788874789


No 65 
>COG0486 ThdF Predicted GTPase [General function prediction only]
Probab=99.22  E-value=8.8e-11  Score=92.47  Aligned_cols=91  Identities=32%  Similarity=0.432  Sum_probs=72.1

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      ++|+.|+|.|||||||++|||.+-..|=+.+.|=||-|---..+.+.               -+|  +.++|.|||-+-.
T Consensus       217 G~kvvIiG~PNvGKSSLLNaL~~~d~AIVTdI~GTTRDviee~i~i~---------------G~p--v~l~DTAGiRet~  279 (454)
T COG0486         217 GLKVVIIGRPNVGKSSLLNALLGRDRAIVTDIAGTTRDVIEEDINLN---------------GIP--VRLVDTAGIRETD  279 (454)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCCEEECCCCCCCCCEEEEEEEEC---------------CEE--EEEEECCCCCCCC
T ss_conf             86499987998867999998866786674289997410378999989---------------889--9998567766673


Q ss_pred             CCCCCCH-HHHHHHHHCCCEEEEEECCCC
Q ss_conf             2246632-899998730374788501234
Q gi|254780226|r   82 SKGEGLG-NQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        82 ~~G~GlG-N~FL~~ir~aDalihVVdaf~  109 (367)
                      ..=+-.| .+=...+.+||.+++|+|++.
T Consensus       280 d~VE~iGIeRs~~~i~~ADlvL~v~D~~~  308 (454)
T COG0486         280 DVVERIGIERAKKAIEEADLVLFVLDASQ  308 (454)
T ss_pred             CHHHHHHHHHHHHHHHHCCEEEEEEECCC
T ss_conf             48999999999999985998999970887


No 66 
>KOG1490 consensus
Probab=99.07  E-value=3.9e-10  Score=88.12  Aligned_cols=87  Identities=25%  Similarity=0.326  Sum_probs=62.6

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      ++=|+|.||||||+|.|-+| -+.+++.+|||||--=-+|-..                 +-|-..|++|.|||.----|
T Consensus       170 TlllcG~PNVGKSSf~~~vt-radvevqpYaFTTksL~vGH~d-----------------ykYlrwQViDTPGILD~plE  231 (620)
T KOG1490         170 TLLVCGYPNVGKSSFNNKVT-RADDEVQPYAFTTKLLLVGHLD-----------------YKYLRWQVIDTPGILDRPEE  231 (620)
T ss_pred             EEEEECCCCCCCHHHCCCCC-CCCCCCCCCCCCCCHHHHHHHH-----------------HHEEEEEECCCCCCCCCCHH
T ss_conf             17985278877376435520-1555557766551012100203-----------------24023440388412476054


Q ss_pred             CCC----CHHHHHHHHHCCCEEEEEECCCCC
Q ss_conf             466----328999987303747885012345
Q gi|254780226|r   84 GEG----LGNQFLAHIREVDAIIHVLRCFKD  110 (367)
Q Consensus        84 G~G----lGN~FL~~ir~aDalihVVdaf~~  110 (367)
                      -+-    .----|+|||.  |.+++.|.|+.
T Consensus       232 drN~IEmqsITALAHLra--aVLYfmDLSe~  260 (620)
T KOG1490         232 DRNIIEMQIITALAHLRS--AVLYFMDLSEM  260 (620)
T ss_pred             HHHHHHHHHHHHHHHHHH--HHEEEEECHHH
T ss_conf             321799999999987565--64113432212


No 67 
>COG1160 Predicted GTPases [General function prediction only]
Probab=99.04  E-value=1.2e-09  Score=84.91  Aligned_cols=91  Identities=26%  Similarity=0.362  Sum_probs=69.9

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      ++|++|||.|||||||+.|++++-..+-+.+-|=||+|+-......            +++     ++.++|.||+=+-+
T Consensus       178 ~ikiaiiGrPNvGKSsLiN~ilgeeR~Iv~~~aGTTRD~I~~~~e~------------~~~-----~~~liDTAGiRrk~  240 (444)
T COG1160         178 PIKIAIIGRPNVGKSSLINAILGEERVIVSDIAGTTRDSIDIEFER------------DGR-----KYVLIDTAGIRRKG  240 (444)
T ss_pred             CEEEEEEECCCCCCHHHHHHHCCCCEEEECCCCCCCCCCEEEEEEE------------CCE-----EEEEEECCCCCCCC
T ss_conf             5089999278787058887750682598459998622033125899------------881-----89999877877466


Q ss_pred             CCCCCC----HHHHHHHHHCCCEEEEEECCCC
Q ss_conf             224663----2899998730374788501234
Q gi|254780226|r   82 SKGEGL----GNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        82 ~~G~Gl----GN~FL~~ir~aDalihVVdaf~  109 (367)
                      .--.+.    =++-+..|..||..+.|+||..
T Consensus       241 ki~e~~E~~Sv~rt~~aI~~a~vvllviDa~~  272 (444)
T COG1160         241 KITESVEKYSVARTLKAIERADVVLLVIDATE  272 (444)
T ss_pred             CCCCCEEEEEEHHHHHHHHHCCEEEEEEECCC
T ss_conf             41242688750546767865688999998887


No 68 
>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta).  SR-beta and SR-alpha form the heterodimeric signal recognition particle (SRP or SR) receptor that binds SRP to regulate protein translocation across the ER membrane.  Nascent polypeptide chains are synthesized with an N-terminal hydrophobic signal sequence that binds SRP54, a component of the SRP.  SRP directs targeting of the ribosome-nascent chain complex (RNC) to the ER membrane via interaction with the SR, which is localized to the ER membrane.  The RNC is then transferred to the protein-conducting channel, or translocon, which facilitates polypeptide translation across the ER membrane or integration into the ER membrane.  SR-beta is found only in eukaryotes; it is believed to control the release of the signal sequence from SRP54 upon binding of the ribosome to the translocon.  High expression of SR-beta has been observed in human colon cancer, suggesting it may play a role in the development of this typ
Probab=99.04  E-value=3.9e-09  Score=81.33  Aligned_cols=81  Identities=22%  Similarity=0.411  Sum_probs=58.7

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCCC
Q ss_conf             86752888788899998740489873666867448833799768555877764218650233579998512235432224
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASKG   84 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~G   84 (367)
                      +=|+|++++||||||+.|......    --+|++.||+|....+.+        .+     +.+++++|+||=-      
T Consensus         3 vLl~Gl~~aGKT~Lf~~L~~~~~~----~T~tS~~~n~~~~~~~~~--------~~-----~~~~~lvD~PGH~------   59 (203)
T cd04105           3 VLLLGPSDSGKTALFTKLTTGKYR----STVTSIEPNVATFILNSE--------GK-----GKKFRLVDVPGHP------   59 (203)
T ss_pred             EEEECCCCCCHHHHHHHHHCCCCC----CCCCCCCCCCEEEECCCC--------CC-----CCEEEEEECCCCH------
T ss_conf             999907999899999999749988----877888786206640246--------68-----7279999879968------


Q ss_pred             CCCHHHHHHHHHC-CCEEEEEECCCC
Q ss_conf             6632899998730-374788501234
Q gi|254780226|r   85 EGLGNQFLAHIRE-VDAIIHVLRCFK  109 (367)
Q Consensus        85 ~GlGN~FL~~ir~-aDalihVVdaf~  109 (367)
                       .|-.+++..+.+ +++||.|||++.
T Consensus        60 -klR~~~~~~~~~~~~gIVfvVDs~~   84 (203)
T cd04105          60 -KLRDKLLETLKNSAKGIVFVVDSAT   84 (203)
T ss_pred             -HHHHHHHHHHHHCCCEEEEEEECCC
T ss_conf             -8999999998754989999996887


No 69 
>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=99.01  E-value=5.7e-09  Score=80.27  Aligned_cols=80  Identities=21%  Similarity=0.232  Sum_probs=53.6

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      .+||=++|.+||||||+++.++. ..  .. ...+|+..|+..+...                 ..++++.|+||    .
T Consensus        14 ~~Ki~ilG~~~sGKTsll~~l~~-~~--~~-~~~pT~g~~~~~v~~~-----------------~~~~~lwD~~G----~   68 (173)
T cd04155          14 EPRILILGLDNAGKTTILKQLAS-ED--IS-HITPTQGFNIKTVQSD-----------------GFKLNVWDIGG----Q   68 (173)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHC-CC--CC-CCCCCCCEEEEEEEEC-----------------CEEEEEEECCC----C
T ss_conf             75899997999988999999856-99--86-6068113237999989-----------------99999985587----5


Q ss_pred             CCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             2246632899998730374788501234
Q gi|254780226|r   82 SKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      .+   +-+-.-...++||++|+|||+++
T Consensus        69 ~~---~~~~~~~y~~~a~~iI~VvD~td   93 (173)
T cd04155          69 RA---IRPYWRNYFENTDCLIYVIDSAD   93 (173)
T ss_pred             HH---HHHHHHHHCCCCCEEEEEEECCC
T ss_conf             10---12689976555637999996675


No 70 
>pfam00025 Arf ADP-ribosylation factor family. Pfam combines a number of different Prosite families together
Probab=99.00  E-value=4.4e-09  Score=81.01  Aligned_cols=80  Identities=24%  Similarity=0.292  Sum_probs=55.4

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      .+||=++|.||||||||++.++...   ... ...|+.+|...+...+                 .++++.|+||-    
T Consensus        14 ~~Ki~llG~~~vGKTsll~~~~~~~---~~~-~~pTig~~~~~v~~~~-----------------~~~~iwDt~Gq----   68 (174)
T pfam00025        14 EMRILILGLDNAGKTTILYKLKLGE---IVT-TIPTIGFNVETVTYKN-----------------VKFTVWDVGGQ----   68 (174)
T ss_pred             EEEEEEECCCCCCHHHHHHHHHCCC---CCC-CCCCCCCEEEEEEECC-----------------EEEEEEECCCC----
T ss_conf             6699999999998899999995499---887-4474682389999899-----------------99999827987----


Q ss_pred             CCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             2246632899998730374788501234
Q gi|254780226|r   82 SKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      .+-+.+..   ...++||++|+|+|++.
T Consensus        69 e~~~~~~~---~y~~~a~~ii~V~D~t~   93 (174)
T pfam00025        69 ESLRPLWR---NYFPNTDAVIFVVDSAD   93 (174)
T ss_pred             CCCCHHHH---HHHCCCCEEEEEEECCC
T ss_conf             02326799---88417826899986786


No 71 
>cd04154 Arl2 Arl2 subfamily.  Arl2 (Arf-like 2) GTPases are members of the Arf family that bind GDP and GTP with very low affinity.  Unlike most Arf family proteins, Arl2 is not myristoylated at its N-terminal helix.  The protein PDE-delta, first identified in photoreceptor rod cells, binds specifically to Arl2 and is structurally very similar to RhoGDI.  Despite the high structural similarity between Arl2 and Rho proteins and between PDE-delta and RhoGDI, the interactions between the GTPases and their effectors are very different.  In its GTP bound form, Arl2 interacts with the protein Binder of Arl2 (BART), and the complex is believed to play a role in mitochondrial adenine nucleotide transport.  In its GDP bound form, Arl2 interacts with tubulin- folding Cofactor D; this interaction is believed to play a role in regulation of microtubule dynamics that impact the cytoskeleton, cell division, and cytokinesis.
Probab=98.99  E-value=1.1e-08  Score=78.24  Aligned_cols=80  Identities=23%  Similarity=0.292  Sum_probs=51.7

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      .+||=++|.|||||||+++.+++ ..       |.++.|.+|.-..             .-.+-..++++-|+||-    
T Consensus        14 ~~KililG~~~sGKTsll~~l~~-~~-------~~~~~pT~G~~~~-------------~~~~~~~~l~iwD~~G~----   68 (173)
T cd04154          14 EMRILILGLDNAGKTTILKKLLG-ED-------IDTISPTLGFQIK-------------TLEYEGYKLNIWDVGGQ----   68 (173)
T ss_pred             CEEEEEECCCCCCHHHHHHHHCC-CC-------CCCCCCCCCEEEE-------------EEEECCEEEEEEECCCC----
T ss_conf             31899998999788999999839-99-------8972670577789-------------99989999999966886----


Q ss_pred             CCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             2246632899998730374788501234
Q gi|254780226|r   82 SKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      .+=+.+..   ...++||++|.|||+++
T Consensus        69 e~~~~~~~---~y~~~a~~ii~VvD~td   93 (173)
T cd04154          69 KTLRPYWR---NYFESTDALIWVVDSSD   93 (173)
T ss_pred             CCCCHHHH---HHHCCCCEEEEEEECCC
T ss_conf             02005899---97226653899985565


No 72 
>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=98.97  E-value=1e-08  Score=78.56  Aligned_cols=80  Identities=30%  Similarity=0.425  Sum_probs=54.2

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEE----EEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCC
Q ss_conf             867528887888999987404898736668674488337----9976855587776421865023357999851223543
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSG----EVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRG   80 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g----~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~g   80 (367)
                      |=++|.+|||||||++.++ ..-......+++++-|.+|    .+...                 ..++++.|+||-   
T Consensus         2 ivilG~~~~GKTsll~~l~-~~~~~~~~~~~~~~~~Tvg~~~~~i~~~-----------------~~~l~iwD~~Gq---   60 (167)
T cd04160           2 VLILGLDNAGKTTFLEQLK-TLFSKYKGLPPSKITPTVGLNIGTIEVG-----------------NARLKFWDLGGQ---   60 (167)
T ss_pred             EEEECCCCCCHHHHHHHHH-HCCCCCCCCCCCCCCCCCCEEEEEEEEC-----------------CEEEEEEECCCC---
T ss_conf             9999999988889999887-5036767776554035313268999989-----------------999999968987---


Q ss_pred             CCCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             22246632899998730374788501234
Q gi|254780226|r   81 ASKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        81 A~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                       .+=+-+   .-...++||++|+|||+++
T Consensus        61 -e~~~~l---~~~y~~~a~~ii~VvD~sd   85 (167)
T cd04160          61 -ESLRSL---WDKYYAECHAIIYVIDSTD   85 (167)
T ss_pred             -HHHHHH---HHHHCCCCCEEEEEEECCC
T ss_conf             -888789---9874289878999986686


No 73 
>pfam09439 SRPRB Signal recognition particle receptor beta subunit. The beta subunit of the signal recognition particle receptor (SRP) is a transmembrane GTPase which anchors the alpha subunit to the endoplasmic reticulum membrane.
Probab=98.97  E-value=6.7e-09  Score=79.77  Aligned_cols=80  Identities=21%  Similarity=0.383  Sum_probs=56.6

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      .+=|+|+.++||||||+.|+.....+    -.|+++||.+....+.          ++     .+++++|+||=-+    
T Consensus         5 tvLllGl~~sGKT~Lf~~L~~~~~~~----T~tS~~~n~~~~~~~~----------~~-----~~~~lvD~PGh~k----   61 (181)
T pfam09439         5 AVIIAGLCDSGKTSLFTLLTTGSVRK----TVTSQEPSAAYKYMNN----------KG-----NSLTLIDFPGHVK----   61 (181)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCCCC----EECCCCCCCEEEEECC----------CC-----CEEEEEECCCCHH----
T ss_conf             69998689998999999997599487----5888678640687516----------89-----6689998899689----


Q ss_pred             CCCCHHHHHH---HHHCCCEEEEEECCCC
Q ss_conf             4663289999---8730374788501234
Q gi|254780226|r   84 GEGLGNQFLA---HIREVDAIIHVLRCFK  109 (367)
Q Consensus        84 G~GlGN~FL~---~ir~aDalihVVdaf~  109 (367)
                         |-.++++   +.+++.+||.|||++.
T Consensus        62 ---lR~~~~~~~~~~~~~~gIVfVVDS~~   87 (181)
T pfam09439        62 ---LRYKLLETLKDSSSLRGLVFVVDSTA   87 (181)
T ss_pred             ---HHHHHHHHHHHHCCCEEEEEEEECCC
T ss_conf             ---99999986430026449999997866


No 74 
>KOG1191 consensus
Probab=98.96  E-value=7.9e-09  Score=79.29  Aligned_cols=89  Identities=31%  Similarity=0.474  Sum_probs=65.1

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCC-C
Q ss_conf             824867528887888999987404898736668674488337997685558777642186502335799985122354-3
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVR-G   80 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~-g   80 (367)
                      +++|.|+|.|||||||+.|||+.-..+=+..-|=||-|.--..+.+            +|     .++-++|.||+-+ .
T Consensus       268 gl~iaIvGrPNvGKSSLlNaL~~~drsIVSpv~GTTRDaiea~v~~------------~G-----~~v~L~DTAGiRe~~  330 (531)
T KOG1191         268 GLQIAIVGRPNVGKSSLLNALSREDRSIVSPVPGTTRDAIEAQVTV------------NG-----VPVRLSDTAGIREES  330 (531)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCCEEECCCCCCCHHHHEEEEEC------------CC-----EEEEEEECCCCCCCC
T ss_conf             7728997699877889998875077447678999641001227630------------87-----589997341310026


Q ss_pred             CCCCCCCH-HHHHHHHHCCCEEEEEECC
Q ss_conf             22246632-8999987303747885012
Q gi|254780226|r   81 ASKGEGLG-NQFLAHIREVDAIIHVLRC  107 (367)
Q Consensus        81 A~~G~GlG-N~FL~~ir~aDalihVVda  107 (367)
                      ...=+-+| ++=-.-++++|+++.||||
T Consensus       331 ~~~iE~~gI~rA~k~~~~advi~~vvda  358 (531)
T KOG1191         331 NDGIEALGIERARKRIERADVILLVVDA  358 (531)
T ss_pred             CCHHHHHHHHHHHHHHHHCCEEEEEECC
T ss_conf             8706777689999887654779999633


No 75 
>KOG1423 consensus
Probab=98.95  E-value=3.1e-09  Score=82.00  Aligned_cols=92  Identities=25%  Similarity=0.330  Sum_probs=71.1

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      ++.+++||-||||||||-|.+-+-..+.+..-+-||-.-+.|++--++                 .++-|+|.||||.--
T Consensus        72 ~L~vavIG~PNvGKStLtN~mig~kv~~vS~K~~TTr~~ilgi~ts~e-----------------TQlvf~DTPGlvs~~  134 (379)
T KOG1423          72 SLYVAVIGAPNVGKSTLTNQMIGQKVSAVSRKVHTTRHRILGIITSGE-----------------TQLVFYDTPGLVSKK  134 (379)
T ss_pred             EEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCEEEEEEEEEECCC-----------------EEEEEECCCCCCCCC
T ss_conf             789999708976545544576487212011566530201357871596-----------------589996487645334


Q ss_pred             C-CCCCCHHHHHH----HHHCCCEEEEEECCCCC
Q ss_conf             2-24663289999----87303747885012345
Q gi|254780226|r   82 S-KGEGLGNQFLA----HIREVDAIIHVLRCFKD  110 (367)
Q Consensus        82 ~-~G~GlGN~FL~----~ir~aDalihVVdaf~~  110 (367)
                      + .+--+--.||.    .+.+||.++-|+|++..
T Consensus       135 ~~r~~~l~~s~lq~~~~a~q~AD~vvVv~Das~t  168 (379)
T KOG1423         135 MHRRHHLMMSVLQNPRDAAQNADCVVVVVDASAT  168 (379)
T ss_pred             HHHHHHHHHHHHHCHHHHHHHCCEEEEEEECCCC
T ss_conf             1356788887653789888638879999855677


No 76 
>cd00881 GTP_translation_factor GTP translation factor family.  This family consists primarily of translation initiation, elongation, and release factors, which play specific roles in protein translation.  In addition, the family includes Snu114p, a component of the U5 small nuclear riboprotein particle which is a component of the spliceosome and is involved in excision of introns, TetM, a tetracycline resistance gene that protects the ribosome from tetracycline binding, and the unusual subfamily CysN/ATPS, which has an unrelated function (ATP sulfurylase) acquired through lateral transfer of the EF1-alpha gene and development of a new function.
Probab=98.94  E-value=4.1e-08  Score=74.45  Aligned_cols=80  Identities=21%  Similarity=0.285  Sum_probs=51.3

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCC----------------CCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEE
Q ss_conf             8675288878889999874048987366686----------------744883379976855587776421865023357
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPF----------------CTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTR   68 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypF----------------tTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~   68 (367)
                      |+|+|-||+|||||.++|++.. ..+..-..                .||+.......                 +-..+
T Consensus         2 v~iiGh~d~GKTTL~~~Ll~~~-~~~~~~~~~~~~~~d~~~~E~~rgiTi~~~~~~~~-----------------~~~~~   63 (189)
T cd00881           2 VGIAGHVDHGKTTLTERLLYVT-GDIERDGTVEETFLDVLKEERERGITIKSGVATFE-----------------WPDRR   63 (189)
T ss_pred             EEEECCCCCCHHHHHHHHHHHC-CCCCCCCCEEEEEECCCHHHHHCCCEEEEEEEEEE-----------------ECCEE
T ss_conf             8999179989999999999764-72356862588850577788863841322279999-----------------89989


Q ss_pred             EEEEECCCCCCCCCCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             99985122354322246632899998730374788501234
Q gi|254780226|r   69 MSFVDIAGLVRGASKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        69 i~~iDvaGLv~gA~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      +.|+|.||-..       .-...+.-++.||+.+.||||..
T Consensus        64 i~~iDTPGh~~-------f~~~~~~~l~~aD~ailvVda~~   97 (189)
T cd00881          64 VNFIDTPGHED-------FSSEVIRGLSVSDGAILVVDANE   97 (189)
T ss_pred             EEEEECCCCHH-------HHHHHHHHHHHCCEEEEEEECCC
T ss_conf             99996998188-------99999999864685699998798


No 77 
>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=98.93  E-value=1.4e-09  Score=84.36  Aligned_cols=56  Identities=30%  Similarity=0.456  Sum_probs=43.3

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCC
Q ss_conf             8248675288878889999874048987366686744883379976855587776421865023357999851223
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGL   77 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGL   77 (367)
                      .+++|+||.||||||||+|+|++...+.++|.|=||-  +.-.+++.                  -.+.++|.||+
T Consensus       102 ~i~v~ivG~PNVGKSSlIN~L~g~k~~~vs~~PG~Tr--~~q~i~~~------------------~~i~liDTPGi  157 (157)
T cd01858         102 QISVGFIGYPNVGKSSIINTLRSKKVCKVAPIPGETK--VWQYITLM------------------KRIYLIDCPGV  157 (157)
T ss_pred             CEEEEEEECCCCCHHHHHHHHHCCCEEEECCCCCEEE--EEEEEEEC------------------CCEEEEECCCC
T ss_conf             4699998258853368898872673588659883377--77999968------------------99999969099


No 78 
>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=98.90  E-value=2.8e-09  Score=82.33  Aligned_cols=35  Identities=43%  Similarity=0.633  Sum_probs=16.6

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCC
Q ss_conf             24867528887888999987404898736668674
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCT   37 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtT   37 (367)
                      +++++||.||||||||+|+|.+...+.+++.|=||
T Consensus       116 ~~v~ivG~PNVGKSSlIN~L~~~~~~~v~~~pGtT  150 (171)
T cd01856         116 IRAMVVGIPNVGKSTLINRLRGKKVAKVGNKPGVT  150 (171)
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCEEEECCCCCCC
T ss_conf             17999737987617999997488638876989853


No 79 
>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases.  Arf proteins are activators of phospholipase D isoforms.  Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated.  Arfs are N-terminally myristoylated.  Members of the Arf family are regulators of vesicle formation in intracellular traffic that interact reversibly with membranes of the secretory and endocytic compartments in a GTP-dependent manner.  They depart from other small GTP-binding proteins by a unique structural device, interswitch toggle, that implements front-back communication from N-terminus to the nucleotide binding site.  Arf-like (Arl) proteins are close relatives of the Arf, but only Arl1 has been shown to function in membrane traffic like the Arf proteins.  Arl2 has an unrelated function in the folding of native tubulin, and Arl4 may function in the nucleus.  Most other Arf family proteins are so far relatively poorly characterized.  Thu
Probab=98.90  E-value=1.8e-08  Score=76.85  Aligned_cols=78  Identities=23%  Similarity=0.257  Sum_probs=52.1

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      ||=++|.|||||||+++.++.. .  ... +.+|+..|...+..                 ...++++.|+||-    .+
T Consensus         1 Ki~ilG~~~vGKTsll~~l~~~-~--~~~-~~pTig~~~~~i~~-----------------~~~~l~iwDt~G~----~~   55 (158)
T cd00878           1 RILILGLDGAGKTTILYKLKLG-E--VVT-TIPTIGFNVETVEY-----------------KNVSFTVWDVGGQ----DK   55 (158)
T ss_pred             CEEEECCCCCCHHHHHHHHHCC-C--CCC-CCCEECCCEEEEEE-----------------CCEEEEEEECCCC----CC
T ss_conf             9999999999889999999539-9--887-44560740899984-----------------8899999988997----22


Q ss_pred             CCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             46632899998730374788501234
Q gi|254780226|r   84 GEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        84 G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      -+.+...   ..++||++|.|+|+++
T Consensus        56 ~~~~~~~---y~~~a~~~i~V~D~t~   78 (158)
T cd00878          56 IRPLWKH---YYENTNGIIFVVDSSD   78 (158)
T ss_pred             CCHHHHH---HHCCCCEEEEEEECCC
T ss_conf             1448998---7276877689983798


No 80 
>cd01616 TGS The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=98.89  E-value=1.9e-09  Score=83.40  Aligned_cols=58  Identities=36%  Similarity=0.499  Sum_probs=49.7

Q ss_pred             EEECCCCCCCCCEECCCCCCHHHHHHCCCCHHCCCCEEEEECCHHHHHHCCCHHHHHHCCCEECCCCEEEECCCCEEEEE
Q ss_conf             66105787545401278676778511001210348369997368887744996888874965315760796549889996
Q gi|254780226|r  285 TYFTVGPKETRAWTIPRGTNAQKAAGVIHTDFEKGFIRALTISYKDYVAMGGENAAKEAGKARDEGKEYIVKDGDILHFR  364 (367)
Q Consensus       285 ~~~tvg~~e~~aw~i~~GstA~d~A~~IHtDi~kgFi~A~v~~~~~~~~~~~~~~~k~~g~~r~~Gkdy~v~DGDVi~~~  364 (367)
                      .+||-   .-+.|.+|+|||+.|+||.|||++++.|+.|.+-.                   |++..+|.|+|||+|+|.
T Consensus         2 ~vftP---~G~~~~lP~GaT~~D~A~~Iht~lg~~~~~a~Vng-------------------~~~~l~~~L~~gd~V~Ii   59 (60)
T cd01616           2 IIFTP---DGSAVELPKGATAMDFALKIHTDLGKGFIGALVNG-------------------QLVDLSYTLQDGDTVSIV   59 (60)
T ss_pred             EEECC---CCCEEECCCCCCHHHHHHHHCCCHHHEEEEEEECC-------------------EECCCCCCCCCCCEEEEE
T ss_conf             99899---99879889989899999987636154599999999-------------------996516699999999997


No 81 
>cd01849 YlqF_related_GTPase YlqF-related GTPases.  These proteins are found in bacteria, eukaryotes, and archaea.  They all exhibit a circular permutation of the GTPase signature motifs so that the order of the conserved G box motifs is G4-G5-G1-G2-G3, with G4 and G5 being permuted from the C-terminal region of proteins in the Ras superfamily to the N-terminus of YlqF-related GTPases.
Probab=98.87  E-value=2.7e-09  Score=82.39  Aligned_cols=56  Identities=32%  Similarity=0.598  Sum_probs=44.2

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCC
Q ss_conf             8248675288878889999874048987366686744883379976855587776421865023357999851223
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGL   77 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGL   77 (367)
                      ++++++||.||||||||+|+|.+...+.+++.|-||.+...  ++.            +      -.+.++|.||+
T Consensus       100 ~~~i~ivG~PNVGKSsliN~L~~~~~~~v~~~pGtTrd~~~--i~~------------~------~~~~liDTpGi  155 (155)
T cd01849         100 SITVGVIGYPNVGKSSVINALLNKLKLKVGNVPGTTTSQQE--VKL------------D------NKIKLLDTPGI  155 (155)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHCCCEEEECCCCCCEECEEE--EEE------------C------CCEEEEECCCC
T ss_conf             60899987777447789999847850626699983835599--996------------8------99899979299


No 82 
>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF. Members of this protein family are GTP-binding proteins involved in ribosome biogenesis, including the essential YlqF protein of Bacillus subtilis, which is an essential protein. They are related to Era, EngA, and other GTPases of ribosome biogenesis, but are circularly permuted. This family is not universal, and is not present in Escherichia coli, and so is not as well studied as some other GTPases. This model is built for bacterial members.
Probab=98.86  E-value=3e-09  Score=82.13  Aligned_cols=59  Identities=31%  Similarity=0.464  Sum_probs=45.7

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCC
Q ss_conf             8248675288878889999874048987366686744883379976855587776421865023357999851223543
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRG   80 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~g   80 (367)
                      ++++++||.|||||||+.|+|.+...+.+++.|=+|-.  .-.+.+.                  -.+.++|.||+++=
T Consensus       118 ~i~v~vVG~PNVGKSSlIN~L~~~k~~~v~~~PG~Tr~--~q~i~l~------------------~~i~llDtPGvl~P  176 (276)
T TIGR03596       118 PIRAMIVGIPNVGKSTLINRLAGKKVAKVGNRPGVTKG--QQWIKLS------------------DGLELLDTPGILWP  176 (276)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHCCCEEEECCCCCCCCE--EEEEEEC------------------CCEEEECCCCCCCC
T ss_conf             63899972798758999998736725877796542102--5899957------------------97799668874578


No 83 
>PRK09563 rbgA ribosomal biogenesis GTPase; Reviewed
Probab=98.84  E-value=4.1e-09  Score=81.21  Aligned_cols=59  Identities=32%  Similarity=0.472  Sum_probs=45.8

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCC
Q ss_conf             8248675288878889999874048987366686744883379976855587776421865023357999851223543
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRG   80 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~g   80 (367)
                      ++++++||.|||||||+.|+|.+...+.+++.|=+|-..  -.+++.                  -.+.++|.||+++-
T Consensus       121 ~i~v~vvG~PNVGKSSlIN~L~~~k~~~v~~~PG~Tk~~--q~v~l~------------------~~i~L~DtPGvl~P  179 (282)
T PRK09563        121 AIRAMIIGIPNVGKSTLINRLAGKKIAKTGNRPGVTKSQ--QWIKLG------------------KGLELLDTPGILWP  179 (282)
T ss_pred             CEEEEEEECCCCCHHHHHHHHHCCCEEEECCCCCCEEEE--EEEEEC------------------CCEEEECCCCCCCC
T ss_conf             638999706977679999987477058767965410025--899957------------------98899668874578


No 84 
>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=98.83  E-value=6.3e-09  Score=79.98  Aligned_cols=34  Identities=47%  Similarity=0.697  Sum_probs=15.4

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCC
Q ss_conf             4867528887888999987404898736668674
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCT   37 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtT   37 (367)
                      +++++|.||||||||+|+|.+...+.+++.|-||
T Consensus       103 ~v~ivG~PNVGKSTLIN~L~~~~~~~v~~~pGtT  136 (156)
T cd01859         103 KVGVVGYPNVGKSSIINALKGRHSASTSPSPGYT  136 (156)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCEEEECCCCCEE
T ss_conf             8999814784598999997488137775999807


No 85 
>cd04156 ARLTS1 ARLTS1 subfamily.  ARLTS1 (Arf-like tumor suppressor gene 1), also known as Arl11, is a member of the Arf family of small GTPases that is believed to play a major role in apoptotic signaling.  ARLTS1 is widely expressed and functions as a tumor suppressor gene in several human cancers.  ARLTS1 is a low-penetrance suppressor that accounts for a small percentage of familial melanoma or familial chronic lymphocytic leukemia (CLL).  ARLTS1 inactivation seems to occur most frequently through biallelic down-regulation by hypermethylation of the promoter.  In breast cancer, ARLTS1 alterations were typically a combination of a hypomorphic polymorphism plus loss of heterozygosity.  In a case of thyroid adenoma, ARLTS1 alterations were polymorphism plus promoter hypermethylation.  The nonsense polymorphism Trp149Stop occurs with significantly greater frequency in familial cancer cases than in sporadic cancer cases, and the Cys148Arg polymorphism is associated with an increase in h
Probab=98.82  E-value=5.8e-08  Score=73.45  Aligned_cols=79  Identities=19%  Similarity=0.280  Sum_probs=51.9

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      ||=++|.+||||||+++.++....  ...+  +|+.-|+-.+.++              +  ..++++-|+||-    ..
T Consensus         1 KivilG~~~~GKTsil~r~~~~~~--~~~~--pTig~~~~~~~~~--------------~--~~~l~iwD~~G~----e~   56 (160)
T cd04156           1 QVLLLGLDSAGKSTLLYKLKHAEL--VTTI--PTVGFNVEMLQLE--------------K--HLSLTVWDVGGQ----EK   56 (160)
T ss_pred             CEEEECCCCCCHHHHHHHHHCCCC--CCCC--CCCCEEEEEEEEC--------------C--EEEEEEEECCCC----CC
T ss_conf             999999999999999999956987--7757--7615038999989--------------9--899999978986----24


Q ss_pred             CCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             46632899998730374788501234
Q gi|254780226|r   84 GEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        84 G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      -+-+.+.+   .|+||++|.|+|+++
T Consensus        57 ~~~~~~~y---~~~a~~iI~V~D~td   79 (160)
T cd04156          57 MRTVWKCY---LENTDGLVYVVDSSD   79 (160)
T ss_pred             CCHHHHHH---HCCCCEEEEEEECCC
T ss_conf             74158877---456778999985686


No 86 
>COG1161 Predicted GTPases [General function prediction only]
Probab=98.82  E-value=7.6e-09  Score=79.42  Aligned_cols=61  Identities=30%  Similarity=0.445  Sum_probs=46.1

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      ..++|+||.|||||||+-|+|.+...+.++++|=+|..-+  .+++.                  -.+.++|.||+++--
T Consensus       132 ~~~v~vvG~PNVGKSslIN~L~~k~~~~~s~~PG~Tk~~q--~i~~~------------------~~i~LlDtPGii~~~  191 (322)
T COG1161         132 KIRVGVVGYPNVGKSTLINRLLGKKVAKTSNRPGTTKGIQ--WIKLD------------------DGIYLLDTPGIIPPK  191 (322)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHCCCCCCCCCCEECCCE--EEECC------------------CCEEEEECCCCCCCC
T ss_conf             6089998789764899999986205552379996204516--89727------------------862897388807886


Q ss_pred             C
Q ss_conf             2
Q gi|254780226|r   82 S   82 (367)
Q Consensus        82 ~   82 (367)
                      .
T Consensus       192 ~  192 (322)
T COG1161         192 F  192 (322)
T ss_pred             C
T ss_conf             4


No 87 
>cd01857 HSR1_MMR1 HSR1/MMR1.  Human HSR1, is localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has only eukaryote members. This subfamily shows a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with sequence NKXD) are relocated to the N terminus.
Probab=98.81  E-value=8.1e-09  Score=79.20  Aligned_cols=57  Identities=32%  Similarity=0.451  Sum_probs=44.0

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCC
Q ss_conf             24867528887888999987404898736668674488337997685558777642186502335799985122354
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVR   79 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~   79 (367)
                      ..+|+||.||||||||.|+|.+-..+.+++.|=||-.  ...+.+            +      -.+.++|.||++.
T Consensus        84 ~~i~ivG~PNVGKSSlIN~L~g~k~~~v~~~PG~Tr~--~~~i~~------------~------~~i~liDTPGi~~  140 (141)
T cd01857          84 ATIGLVGYPNVGKSSLINALVGKKKVSVSATPGKTKH--FQTIFL------------T------PTITLCDCPGLVF  140 (141)
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCEEEECCCCCCCCC--EEEEEE------------C------CCEEEEECCCCCC
T ss_conf             2689977888669999999858866876599941576--689996------------8------9999998988689


No 88 
>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=98.81  E-value=8.5e-08  Score=72.32  Aligned_cols=79  Identities=23%  Similarity=0.304  Sum_probs=52.7

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      +|-++|.+|||||||++.++.. . -..+| .+||..+.-.+..+                 ..++++.|+||-    .+
T Consensus         1 ~I~llG~~~~GKTsll~~~~~~-~-f~~~~-~pTig~~~~~i~~~-----------------~~~l~iwDt~G~----e~   56 (159)
T cd04159           1 EITLVGLQNSGKTTLVNVIAGG-Q-FSEDT-IPTVGFNMRKVTKG-----------------NVTLKVWDLGGQ----PR   56 (159)
T ss_pred             CEEEECCCCCCHHHHHHHHHCC-C-CCCCC-CCCCCEEEEEEEEC-----------------CEEEEEEECCCH----HH
T ss_conf             9899999998699999999759-9-98861-67325058999989-----------------999999979835----87


Q ss_pred             CCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             46632899998730374788501234
Q gi|254780226|r   84 GEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        84 G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      -+.+...   ..|+||++++|+|+++
T Consensus        57 ~~~l~~~---y~~~~~~ii~V~D~sd   79 (159)
T cd04159          57 FRSMWER---YCRGVNAIVYVVDAAD   79 (159)
T ss_pred             HHHHHHH---HHCCCCEEEECCCCCC
T ss_conf             7999998---7468636875157787


No 89 
>cd04157 Arl6 Arl6 subfamily.  Arl6 (Arf-like 6) forms a subfamily of the Arf family of small GTPases.  Arl6 expression is limited to the brain and kidney in adult mice, but it is expressed in the neural plate and somites during embryogenesis, suggesting a possible role for Arl6 in early development.  Arl6 is also believed to have a role in cilia or flagella function.  Several proteins have been identified that bind Arl6, including Arl6 interacting protein (Arl6ip), and SEC61beta, a subunit of the heterotrimeric conducting channel SEC61p.  Based on Arl6 binding to these effectors, Arl6 is also proposed to play a role in protein transport, membrane trafficking, or cell signaling during hematopoietic maturation.  At least three specific homozygous Arl6 mutations in humans have been found to cause Bardet-Biedl syndrome, a disorder characterized by obesity, retinopathy, polydactyly, renal and cardiac malformations, learning disabilities, and hypogenitalism.  Older literature suggests that A
Probab=98.81  E-value=5.8e-08  Score=73.45  Aligned_cols=79  Identities=25%  Similarity=0.357  Sum_probs=51.3

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCCC
Q ss_conf             86752888788899998740489873666867448833799768555877764218650233579998512235432224
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASKG   84 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~G   84 (367)
                      |=++|++||||||+.+.+.. ...... +..+|+-.|+..+...                 ..++++.|++|    ..+.
T Consensus         2 Il~lGl~~sGKTtil~~l~~-~~~~~~-~~~pT~G~~~~~~~~~-----------------~~~~~iwD~~G----~~~~   58 (162)
T cd04157           2 ILVVGLDNSGKTTIINQLKP-ENAQSQ-IIVPTVGFNVESFEKG-----------------NLSFTAFDMSG----QGKY   58 (162)
T ss_pred             EEEECCCCCCHHHHHHHHHC-CCCCCC-CCCCCCCEEEEEEEEC-----------------CEEEEEEECCC----CCCC
T ss_conf             99999999988999999972-898756-4168507578999839-----------------98899998588----7442


Q ss_pred             CCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             6632899998730374788501234
Q gi|254780226|r   85 EGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        85 ~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      +.+...+   .++||++|.|||+++
T Consensus        59 r~lw~~y---~~~~~~iI~VvDssd   80 (162)
T cd04157          59 RGLWEHY---YKNIQGIIFVIDSSD   80 (162)
T ss_pred             CHHHHHH---HCCCCEEEEEEECCC
T ss_conf             0558987---056744899970763


No 90 
>PTZ00133 ADP-ribosylation factor; Provisional
Probab=98.78  E-value=2.5e-07  Score=69.12  Aligned_cols=80  Identities=21%  Similarity=0.299  Sum_probs=53.4

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      .+||=++|++||||||+++.+.. ... ...  ..|+-.|+-.+..                 -..++++-|+||    .
T Consensus        17 ~~kililGl~~sGKTsil~~l~~-~~~-~~~--~pTvg~~~~~~~~-----------------~~~~l~iwD~~G----q   71 (182)
T PTZ00133         17 EVRILMVGLDAAGKTTILYKLKL-GEV-VTT--IPTIGFNVETVEY-----------------KNLKFTMWDVGG----Q   71 (182)
T ss_pred             EEEEEEECCCCCCHHHHHHHHHC-CCC-CCC--CCCCCCCEEEEEE-----------------CCEEEEEEECCC----C
T ss_conf             47999996799889999999962-997-773--7868845699997-----------------888999998999----8


Q ss_pred             CCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             2246632899998730374788501234
Q gi|254780226|r   82 SKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      ..-+.+...+   .|+||++|.|||+++
T Consensus        72 e~~r~lw~~y---y~~~~giI~VvD~sd   96 (182)
T PTZ00133         72 DKLRPLWRHY---YQNTNGIIFVVDSND   96 (182)
T ss_pred             CCCCHHHHHC---CCCCCEEEEEEECCC
T ss_conf             4547478760---567644999996678


No 91 
>KOG0410 consensus
Probab=98.76  E-value=1.2e-08  Score=78.17  Aligned_cols=87  Identities=26%  Similarity=0.420  Sum_probs=64.4

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      -|.+||++|+||||+.|+||+ +.....+.-|.|.||..-.+..|.           ++-     +-|+|.-|.+..-- 
T Consensus       180 viavVGYTNaGKsTLikaLT~-Aal~p~drLFATLDpT~h~a~Lps-----------g~~-----vlltDTvGFisdLP-  241 (410)
T KOG0410         180 VIAVVGYTNAGKSTLIKALTK-AALYPNDRLFATLDPTLHSAHLPS-----------GNF-----VLLTDTVGFISDLP-  241 (410)
T ss_pred             EEEEEEECCCCHHHHHHHHHH-HHCCCCCHHHEECCCHHHHCCCCC-----------CCE-----EEEEECHHHHHHCC-
T ss_conf             289996347668899999875-005830001101253134300799-----------867-----99960346665474-


Q ss_pred             CCCCHHH---HHHHHHCCCEEEEEECCCC
Q ss_conf             4663289---9998730374788501234
Q gi|254780226|r   84 GEGLGNQ---FLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        84 G~GlGN~---FL~~ir~aDalihVVdaf~  109 (367)
                       -+|=-.   -|.++..+|.|+||||.|.
T Consensus       242 -~~LvaAF~ATLeeVaeadlllHvvDiSh  269 (410)
T KOG0410         242 -IQLVAAFQATLEEVAEADLLLHVVDISH  269 (410)
T ss_pred             -HHHHHHHHHHHHHHHHCCEEEEEEECCC
T ss_conf             -9999999999998752344899861579


No 92 
>smart00177 ARF ARF-like small GTPases; ARF, ADP-ribosylation factor. Ras homologues involved in vesicular transport. Activator of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. ARFs are N-terminally myristoylated. Contains ATP/GTP-binding motif (P-loop).
Probab=98.75  E-value=3.5e-07  Score=68.15  Aligned_cols=80  Identities=20%  Similarity=0.284  Sum_probs=52.7

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      .+||=++|++||||||+++.+.. ... ...  ..|+..|+-.+...                 ..++++-|+||    .
T Consensus        13 ~~kililG~~~~GKTsil~~l~~-~~~-~~~--~pTvg~~~~~~~~~-----------------~~~l~iwD~~G----q   67 (175)
T smart00177       13 EMRILMVGLDAAGKTTILYKLKL-GES-VTT--IPTIGFNVETVTYK-----------------NISFTVWDVGG----Q   67 (175)
T ss_pred             EEEEEEECCCCCCHHHHHHHHHC-CCC-CCC--CCCCCCEEEEEEEC-----------------CEEEEEEECCC----C
T ss_conf             89999998899998999999965-997-775--79788107999989-----------------89999998999----8


Q ss_pred             CCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             2246632899998730374788501234
Q gi|254780226|r   82 SKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      .+=+.+...+   .|+||++|.|||+++
T Consensus        68 e~~r~l~~~Y---y~~a~~iIfVvD~sd   92 (175)
T smart00177       68 DKIRPLWRHY---YTNTQGLIFVVDSND   92 (175)
T ss_pred             CCCCHHHHHH---CCCCCEEEEEEECCC
T ss_conf             5455367775---577618999986687


No 93 
>smart00178 SAR Sar1p-like members of the Ras-family  of small GTPases. Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus.
Probab=98.73  E-value=1.2e-07  Score=71.35  Aligned_cols=80  Identities=26%  Similarity=0.417  Sum_probs=57.1

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      .+||=++|+.|+||||+.+.+-. ..  .. ....|+-+|+..+.+.+                 .++.+.|+.|    .
T Consensus        17 e~~ililGLd~aGKTTil~~lk~-~~--~~-~~~PT~g~~~e~~~~~~-----------------~~~~~wDlgG----~   71 (184)
T smart00178       17 HAKILFLGLDNAGKTTLLHMLKN-DR--LA-QHQPTQHPTSEELAIGN-----------------IKFTTFDLGG----H   71 (184)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHC-CC--CC-CCCCCCCCCEEEEEECC-----------------EEEEEEECCC----C
T ss_conf             14799996588988999999806-99--75-30578788648999999-----------------9999998898----7


Q ss_pred             CCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             2246632899998730374788501234
Q gi|254780226|r   82 SKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      .+-+.+...+   ..+||+||.|||+++
T Consensus        72 ~~~R~lW~~Y---y~~~~~iIfVVDssD   96 (184)
T smart00178       72 QQARRLWKDY---FPEVNGIVYLVDAYD   96 (184)
T ss_pred             HHHHHHHHHH---HCCCCEEEEEEECCC
T ss_conf             7788999988---216758999972686


No 94 
>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily.  Arl2l1 (Arl2-like protein 1) and Arl13 form a subfamily of the Arf family of small GTPases.  Arl2l1 was identified in human cells during a search for the gene(s) responsible for Bardet-Biedl syndrome (BBS).  Like Arl6, the identified BBS gene, Arl2l1 is proposed to have cilia-specific functions.  Arl13 is found on the X chromosome, but its expression has not been confirmed; it may be a pseudogene.
Probab=98.73  E-value=8.7e-08  Score=72.25  Aligned_cols=77  Identities=19%  Similarity=0.270  Sum_probs=51.2

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCCC
Q ss_conf             86752888788899998740489873666867448833799768555877764218650233579998512235432224
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASKG   84 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~G   84 (367)
                      |=++|++|+||||+++.+.+..   ..+ ...|+-.|+..+....                 .++.+.|+.|    ..+-
T Consensus         2 ililGLd~aGKTTil~~l~~~~---~~~-~~PT~G~~~~~~~~~~-----------------~~l~~~DlgG----~~~~   56 (167)
T cd04161           2 LLTVGLDNAGKTTLVSALQGEI---PKK-VAPTVGFTPTKLRLDK-----------------YEVCIFDLGG----GANF   56 (167)
T ss_pred             EEEEEECCCCHHHHHHHHCCCC---CCC-CCCCCCCCEEEEEECC-----------------EEEEEEECCC----CHHH
T ss_conf             8999008998899999982899---876-5087773179999899-----------------9999998998----7788


Q ss_pred             CCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             6632899998730374788501234
Q gi|254780226|r   85 EGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        85 ~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      |.+.   -...+++|+||.|||+++
T Consensus        57 R~lW---~~Y~~~~~gIIfVVDssD   78 (167)
T cd04161          57 RGIW---VNYYAEAHGLVFVVDSSD   78 (167)
T ss_pred             HHHH---HHHCCCCCEEEEEEECCC
T ss_conf             8999---987347765799985575


No 95 
>cd00882 Ras_like_GTPase Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras, Rho, Rab, and Sar1/Arf families.  This superfamily also includes proteins like the GTP translation factors, Era-like GTPases, and G-alpha chain of the heterotrimeric G proteins.  Members of the Ras superfamily regulate a wide variety of cellular functions: the Ras family regulates gene expression, the Rho family regulates cytoskeletal reorganization and gene expression, the Rab and Sar1/Arf families regulate vesicle trafficking, and the Ran family regulates nucleocytoplasmic transport and microtubule organization. The GTP translation factor family regulate initiation, elongation, termination, and release in translation, and the Era-like GTPase family regulates cell division, sporulation, and DNA replication. Memb
Probab=98.71  E-value=1.2e-07  Score=71.22  Aligned_cols=146  Identities=21%  Similarity=0.187  Sum_probs=85.4

Q ss_pred             EEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCCCCC
Q ss_conf             75288878889999874048987366686744883379976855587776421865023357999851223543222466
Q gi|254780226|r    7 IIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASKGEG   86 (367)
Q Consensus         7 lvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~G~G   86 (367)
                      ++|-|+||||||.+.+.+ .......+|.|+++.....+...            +   .+.++.+.|.||......    
T Consensus         1 vvG~~~~GKSsl~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~------------~---~~~~~~i~D~~g~~~~~~----   60 (157)
T cd00882           1 VVGDSGVGKTSLLNRLLG-GEFVPEEYETTIIDFYSKTIEVD------------G---KKVKLQIWDTAGQERFRS----   60 (157)
T ss_pred             CCCCCCCCHHHHHHHHHC-CCCCCCCCCCCEEEEEEEEEEEC------------C---EEEEEEEEECCCCHHHHH----
T ss_conf             929499688999999971-98887646871578999999999------------9---999999998589511567----


Q ss_pred             CHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHH
Q ss_conf             32899998730374788501234542113457767321578898888764332224577777875203204677789999
Q gi|254780226|r   87 LGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLLQSII  166 (367)
Q Consensus        87 lGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~~~~l  166 (367)
                         --...++.+|++++|.|+.....          .+++               + .|-                    
T Consensus        61 ---~~~~~~~~~~~~i~v~d~~~~~s----------~~~~---------------~-~~~--------------------   91 (157)
T cd00882          61 ---LRRLYYRGADGIILVYDVTDRES----------FENV---------------K-EWL--------------------   91 (157)
T ss_pred             ---HHHHHHHHCCEEEEEEECCCHHH----------HHHH---------------H-HHH--------------------
T ss_conf             ---89999753579999986588888----------9999---------------9-999--------------------


Q ss_pred             HHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCCCHHHH
Q ss_conf             98899887587410344313267776210235764101001003430111010134678778864369840332100246
Q gi|254780226|r  167 SSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIISAAIEA  246 (367)
Q Consensus       167 ~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~isa~~E~  246 (367)
                                               ...........+|+++++||.|....+.....+....++...+..++.+||+...
T Consensus        92 -------------------------~~~~~~~~~~~~~iiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  146 (157)
T cd00882          92 -------------------------LLILINKEGENIPIILVGNKIDLPEERVVSEEELAEQLAKELGVPYFETSAKTGE  146 (157)
T ss_pred             -------------------------HHHHHHHCCCCCCEEEEEECCCCHHCCCCCHHHHHHHHHHHCCCEEEEECCCCCC
T ss_conf             -------------------------9999975258984999985356154066889999999998789869998478883


No 96 
>cd04158 ARD1 ARD1 subfamily.  ARD1 (ADP-ribosylation factor domain protein 1) is an unusual member of the Arf family.  In addition to the C-terminal Arf domain, ARD1 has an additional 46-kDa N-terminal domain that contains a RING finger domain, two predicted B-Boxes, and a coiled-coil protein interaction motif.  This domain belongs to the TRIM (tripartite motif) or RBCC (RING, B-Box, coiled-coil) family.  Like most Arfs, the ARD1 Arf domain lacks detectable GTPase activity.  However, unlike most Arfs, the full-length ARD1 protein has significant GTPase activity due to the GAP (GTPase-activating protein) activity exhibited by the 46-kDa N-terminal domain.  The GAP domain of ARD1 is specific for its own Arf domain and does not bind other Arfs.  The rate of GDP dissociation from the ARD1 Arf domain is slowed by the adjacent 15 amino acids, which act as a GDI (GDP-dissociation inhibitor) domain.  ARD1 is ubiquitously expressed in cells and localizes to the Golgi and to the lysosomal membra
Probab=98.71  E-value=5.6e-07  Score=66.80  Aligned_cols=78  Identities=22%  Similarity=0.302  Sum_probs=52.0

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      ||=++|++||||||+++.+... ..  . -+.+|+-.|+-.+...                 ..++++-|++|    ..+
T Consensus         1 KIlilGl~~sGKTtil~~l~~~-~~--~-~~~pT~G~~~~~i~~~-----------------~~~l~iwD~gG----~~~   55 (169)
T cd04158           1 RVVTLGLDGAGKTTILFKLKQD-EF--M-QPIPTIGFNVETVEYK-----------------NLKFTIWDVGG----KHK   55 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHHCC-CC--C-CCCCCCCCCEEEEEEC-----------------CEEEEEEECCC----CCC
T ss_conf             9999998999889999999579-96--8-9778688166999989-----------------88999998999----724


Q ss_pred             CCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             46632899998730374788501234
Q gi|254780226|r   84 GEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        84 G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      -+.+...+   .|+|+++|.|||+++
T Consensus        56 ~r~~w~~Y---y~~~~~iIfVvDssd   78 (169)
T cd04158          56 LRPLWKHY---YLNTQAVVFVVDSSH   78 (169)
T ss_pred             CCHHHHHH---CCCCCEEEEEEECCH
T ss_conf             46367875---557627999998630


No 97 
>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily.  Arl5 (Arf-like 5) and Arl8, like Arl4 and Arl7, are localized to the nucleus and nucleolus.  Arl5 is developmentally regulated during embryogenesis in mice.  Human Arl5 interacts with the heterochromatin protein 1-alpha (HP1alpha), a nonhistone chromosomal protein that is associated with heterochromatin and telomeres, and prevents telomere fusion.  Arl5 may also play a role in embryonic nuclear dynamics and/or signaling cascades. Arl8 was identified from a fetal cartilage cDNA library.  It is found in brain, heart, lung, cartilage, and kidney.  No function has been assigned for Arl8 to date.
Probab=98.70  E-value=2.8e-07  Score=68.81  Aligned_cols=80  Identities=26%  Similarity=0.326  Sum_probs=52.5

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      .+||=++|++||||||+++.++....  ...  .+|+-.|+..+...                 ..++++-|+||    .
T Consensus        15 ~~KililG~~~sGKTsil~~l~~~~~--~~~--~pT~G~~~~~i~~~-----------------~~~~~iwD~~G----~   69 (174)
T cd04153          15 EYKVIIVGLDNAGKTTILYQFLLGEV--VHT--SPTIGSNVEEIVYK-----------------NIRFLMWDIGG----Q   69 (174)
T ss_pred             EEEEEEECCCCCCHHHHHHHHHCCCC--CCC--CCCCCCCEEEEEEC-----------------CEEEEEEECCC----C
T ss_conf             79999998999988999999973992--771--67236046999978-----------------88999998999----8


Q ss_pred             CCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             2246632899998730374788501234
Q gi|254780226|r   82 SKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      .+-+.+...+   .++||++|.|||+++
T Consensus        70 e~~~~~~~~y---~~~a~~ii~VvD~sd   94 (174)
T cd04153          70 ESLRSSWNTY---YTNTDAVILVIDSTD   94 (174)
T ss_pred             CCCCCHHHHH---HCCCCEEEEEEECCC
T ss_conf             6566226777---057753799997678


No 98 
>cd01890 LepA LepA subfamily.  LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome.  LepA is ubiquitous in bacteria and eukaryota (e.g. yeast GUF1p), but is missing from archaea.  This pattern of phyletic distribution suggests that LepA evolved through a duplication of the EF-G gene in bacteria, followed by early transfer into the eukaryotic lineage, most likely from the promitochondrial endosymbiont.  Yeast GUF1p is not essential and mutant cells did not reveal any marked phenotype.
Probab=98.70  E-value=6.1e-07  Score=66.55  Aligned_cols=95  Identities=16%  Similarity=0.171  Sum_probs=50.4

Q ss_pred             EEEEEECCCCCHHHHHHHHHCC--CCCCCCCCCC----CCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCC
Q ss_conf             4867528887888999987404--8987366686----744883379976855587776421865023357999851223
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRT--ASAQAANYPF----CTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGL   77 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~--~~~~~~~ypF----tTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGL   77 (367)
                      .++++|-+++|||||..++-..  ...+.+...-    .-.++.+|+.--    .....-.|+..+..+..+.|+|.||=
T Consensus         2 NiaiiGHvd~GKTTL~~~ll~~tg~i~~~~~~~~~~D~~~~E~eRgiTi~----~~~~~~~~~~~~~~~~~in~iDtPGh   77 (179)
T cd01890           2 NFSIIAHIDHGKSTLADRLLELTGTVSKREMKEQVLDSMDLERERGITIK----AQTVRLNYKAKDGQEYLLNLIDTPGH   77 (179)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHCCCCCCCCCCCEECCCCHHHHHCCCEEE----EEEEEEEEECCCCCCEEEEEEECCCC
T ss_conf             59999489989899999999985995414573244165176786386687----43368884136787148999989986


Q ss_pred             CCCCCCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             54322246632899998730374788501234
Q gi|254780226|r   78 VRGASKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        78 v~gA~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      ..       .-.+...-++.||+.+.||||.+
T Consensus        78 ~d-------F~~~~~~al~~~D~allVVda~~  102 (179)
T cd01890          78 VD-------FSYEVSRSLAACEGALLLVDATQ  102 (179)
T ss_pred             CC-------CHHHHHHHHHHHCEEEEEEECCC
T ss_conf             45-------17789889975442789986477


No 99 
>cd04150 Arf1_5_like Arf1-Arf5-like subfamily.  This subfamily contains Arf1, Arf2, Arf3, Arf4, Arf5, and related proteins.  Arfs1-5 are soluble proteins that are crucial for assembling coat proteins during vesicle formation.  Each contains an N-terminal myristoylated amphipathic helix that is folded into the protein in the GDP-bound state.  GDP/GTP exchange exposes the helix, which anchors to the membrane.  Following GTP hydrolysis, the helix dissociates from the membrane and folds back into the protein.  A general feature of Arf1-5 signaling may be the cooperation of two Arfs at the same site.  Arfs1-5 are generally considered to be interchangeable in function and location, but some specific functions have been assigned.  Arf1 localizes to the early/cis-Golgi, where it is activated by GBF1 and recruits the coat protein COPI.  It also localizes to the trans-Golgi network (TGN), where it is activated by BIG1/BIG2 and recruits the AP1, AP3, AP4, and GGA proteins.  Humans, but not rodents
Probab=98.69  E-value=3.1e-07  Score=68.50  Aligned_cols=79  Identities=20%  Similarity=0.280  Sum_probs=53.3

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337997685558777642186502335799985122354322
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      |||=++|++||||||+++.+... .. ...+  +|+-.|...+...                 ..++++-|++|    ..
T Consensus         1 ~KililG~~~sGKTsll~~l~~~-~~-~~~~--pT~g~~~~~~~~~-----------------~~~l~iwD~~G----~~   55 (159)
T cd04150           1 MRILMVGLDAAGKTTILYKLKLG-EI-VTTI--PTIGFNVETVEYK-----------------NISFTVWDVGG----QD   55 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHHCC-CC-CCCC--CCCCCCEEEEEEC-----------------CEEEEEEECCC----CC
T ss_conf             99999999999989999999729-96-7758--9687017999989-----------------89999997899----72


Q ss_pred             CCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             246632899998730374788501234
Q gi|254780226|r   83 KGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        83 ~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      +-+.+...+   .|+|+++|.|||+++
T Consensus        56 ~~r~l~~~Y---~~~a~~iI~VvD~sd   79 (159)
T cd04150          56 KIRPLWRHY---FQNTQGLIFVVDSND   79 (159)
T ss_pred             CCCHHHHHH---CCCCCEEEEEEECCC
T ss_conf             146567864---768738999997777


No 100
>cd01668 TGS_RelA_SpoT TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after the Threonyl-tRNA Synthetase, GTPase, and SpoT proteins where it occurs.  The function of the TGS domain is unknown.
Probab=98.67  E-value=2.3e-08  Score=76.22  Aligned_cols=52  Identities=25%  Similarity=0.339  Sum_probs=44.8

Q ss_pred             CCCEECCCCCCHHHHHHCCCCHHCCCCEEEEECCHHHHHHCCCHHHHHHCCCEECCCCEEEECCCCEEEEE
Q ss_conf             45401278676778511001210348369997368887744996888874965315760796549889996
Q gi|254780226|r  294 TRAWTIPRGTNAQKAAGVIHTDFEKGFIRALTISYKDYVAMGGENAAKEAGKARDEGKEYIVKDGDILHFR  364 (367)
Q Consensus       294 ~~aw~i~~GstA~d~A~~IHtDi~kgFi~A~v~~~~~~~~~~~~~~~k~~g~~r~~Gkdy~v~DGDVi~~~  364 (367)
                      -+...+|+|||+.|+||.||||+|+.++.|.+                 .|  +.+.-+|.|+|||+|++.
T Consensus         8 G~~~~LP~GaT~lDfAy~iht~lG~~~~~a~v-----------------Ng--~~~~l~~~L~~GD~VeIi   59 (60)
T cd01668           8 GEIIELPAGATVLDFAYAIHTEIGNRCVGAKV-----------------NG--KLVPLSTVLKDGDIVEII   59 (60)
T ss_pred             CCEEECCCCCCHHHEHHHHCCCHHHEEEEEEE-----------------CC--EECCCCCCCCCCCEEEEE
T ss_conf             97787899981410433554101422689999-----------------99--998987682899999987


No 101
>cd04149 Arf6 Arf6 subfamily.  Arf6 (ADP ribosylation factor 6) proteins localize to the plasma membrane, where they perform a wide variety of functions.  In its active, GTP-bound form, Arf6 is involved in cell spreading, Rac-induced formation of plasma membrane ruffles, cell migration, wound healing, and Fc-mediated phagocytosis.  Arf6 appears to change the actin structure at the plasma membrane by activating Rac, a Rho family protein involved in membrane ruffling.  Arf6 is required for and enhances Rac formation of ruffles.  Arf6 can regulate dendritic branching in hippocampal neurons, and in yeast it localizes to the growing bud, where it plays a role in polarized growth and bud site selection.  In leukocytes, Arf6 is required for chemokine-stimulated migration across endothelial cells.  Arf6 also plays a role in down-regulation of beta2-adrenergic receptors and luteinizing hormone receptors by facilitating the release of sequestered arrestin to allow endocytosis.  Arf6 is believed t
Probab=98.65  E-value=4.8e-07  Score=67.26  Aligned_cols=80  Identities=19%  Similarity=0.280  Sum_probs=53.4

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      .+||=++|++||||||+++.++.. .. ...  .+|+..|...+...                 ..++++-|+||    .
T Consensus         9 ~~kililG~~~sGKTsil~~l~~~-~~-~~~--~pTvg~~~~~~~~~-----------------~~~l~iwD~~G----q   63 (168)
T cd04149           9 EMRILMLGLDAAGKTTILYKLKLG-QS-VTT--IPTVGFNVETVTYK-----------------NVKFNVWDVGG----Q   63 (168)
T ss_pred             EEEEEEECCCCCCHHHHHHHHHCC-CC-CCC--CCCCCCEEEEEEEC-----------------CEEEEEEECCC----C
T ss_conf             889999999999989999999669-98-760--26267007999989-----------------88999998999----9


Q ss_pred             CCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             2246632899998730374788501234
Q gi|254780226|r   82 SKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      -+-+.+...+   .++||++|.|||+++
T Consensus        64 e~~r~l~~~y---~~~~~~iifVvDstd   88 (168)
T cd04149          64 DKIRPLWRHY---YTGTQGLIFVVDSAD   88 (168)
T ss_pred             CCCCCHHHHH---CCCCCEEEEEEECCC
T ss_conf             7466065764---378866899983776


No 102
>pfam02824 TGS TGS domain. The TGS domain is named after ThrRS, GTPase, and SpoT. Interestingly, TGS domain was detected also at the amino terminus of the uridine kinase from the spirochaete Treponema pallidum (but not any other organism, including the related spirochaete Borrelia burgdorferi). TGS is a small domain that consists of ~50 amino acid residues and is predicted to possess a predominantly beta-sheet structure. There is no direct information on the functions of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=98.60  E-value=6.5e-08  Score=73.10  Aligned_cols=50  Identities=32%  Similarity=0.511  Sum_probs=44.7

Q ss_pred             CEECCCCCCHHHHHHCCCCHHCCCCEEEEECCHHHHHHCCCHHHHHHCCCEECCCCEEEECCCCEEEEE
Q ss_conf             401278676778511001210348369997368887744996888874965315760796549889996
Q gi|254780226|r  296 AWTIPRGTNAQKAAGVIHTDFEKGFIRALTISYKDYVAMGGENAAKEAGKARDEGKEYIVKDGDILHFR  364 (367)
Q Consensus       296 aw~i~~GstA~d~A~~IHtDi~kgFi~A~v~~~~~~~~~~~~~~~k~~g~~r~~Gkdy~v~DGDVi~~~  364 (367)
                      ...+|+|||+.|+|+.||+++++.|++|.+-.                   ++++.+|.|+|||+|+|.
T Consensus        10 ~~~lp~GaT~~D~A~~Ih~~lg~~~~~A~VnG-------------------~~v~l~~~L~~gd~V~Ii   59 (60)
T pfam02824        10 VPELPRGSTPEDFAYAIHTDLGKKFIGAKVNG-------------------QRVGLDHVLEDGDVVEIV   59 (60)
T ss_pred             EEECCCCCCHHHHHHHHCHHHHHEEEEEEECC-------------------EECCCCCCCCCCCEEEEE
T ss_conf             68789989699999886978641176789998-------------------887621124899999987


No 103
>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily.  Arl4 (Arf-like 4) is highly expressed in testicular germ cells, and is found in the nucleus and nucleolus.  In mice, Arl4 is developmentally expressed during embryogenesis, and a role in somite formation and central nervous system differentiation has been proposed.  Arl7 has been identified as the only Arf/Arl protein to be induced by agonists of liver X-receptor and retinoid X-receptor and by cholesterol loading in human macrophages.  Arl7 is proposed to play a role in transport between a perinuclear compartment and the plasma membrane, apparently linked to the ABCA1-mediated cholesterol secretion pathway.  Older literature suggests that Arl6 is a part of the Arl4/Arl7 subfamily, but analyses based on more recent sequence data place Arl6 in its own subfamily.
Probab=98.59  E-value=3.7e-06  Score=61.31  Aligned_cols=85  Identities=24%  Similarity=0.332  Sum_probs=53.4

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      ++||=++|.+||||||+.+.+... .- ...+  +|+-.+.-.+.+.         ..+.+   ..++++-|+||    .
T Consensus         3 ~~kIvilG~~~~GKTsil~r~~~~-~f-~~~~--pTiG~~~~~~~~~---------~~~~~---~v~l~iwDtaG----q   62 (183)
T cd04152           3 SLHIVMLGLDSAGKTTVLYRLKFN-EF-VNTV--PTKGFNTEKIKVS---------LGNSK---GITFHFWDVGG----Q   62 (183)
T ss_pred             EEEEEEECCCCCCHHHHHHHHHCC-CC-CCCC--CCCCEEEEEEEEE---------CCCCC---EEEEEEEECCC----C
T ss_conf             799999999999889999999649-86-7768--7035578999996---------16786---67999997898----7


Q ss_pred             CCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             2246632899998730374788501234
Q gi|254780226|r   82 SKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      -+-+.+...+   .|+||++|.|+|+++
T Consensus        63 e~~r~l~~~Y---~r~a~g~i~V~D~td   87 (183)
T cd04152          63 EKLRPLWKSY---TRCTDGIVFVVDSVD   87 (183)
T ss_pred             CCCCEEHHHH---HCCCCEEEEEEECCC
T ss_conf             3451008767---467867899996776


No 104
>cd00154 Rab Rab family.  Rab GTPases form the largest family within the Ras superfamily.  There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways.  The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion.  GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state.  Rabs are further regulated by guanine nucleotide di
Probab=98.59  E-value=1.5e-06  Score=63.99  Aligned_cols=148  Identities=22%  Similarity=0.255  Sum_probs=83.6

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337997685558777642186502335799985122354322
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      +||-++|.++||||||.+.+... .- ..+|. +|+.++.....+.          +++   ...++++.|+||.-.   
T Consensus         1 ~Ki~vvG~~~vGKTsli~~~~~~-~f-~~~~~-~Tig~d~~~~~~~----------~~~---~~~~l~iwDt~G~e~---   61 (159)
T cd00154           1 FKIVLIGDSGVGKTSLLLRFVDG-KF-DENYK-STIGVDFKSKTIE----------IDG---KTVKLQIWDTAGQER---   61 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHC-CC-CCCCC-CCCCEEEEEEEEE----------ECC---EEEEEEEEECCCCHH---
T ss_conf             98999996996899999999709-99-99848-8666479999999----------999---999999997898265---


Q ss_pred             CCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH
Q ss_conf             24663289999873037478850123454211345776732157889888876433222457777787520320467778
Q gi|254780226|r   83 KGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLL  162 (367)
Q Consensus        83 ~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~  162 (367)
                       =+.+...   .+++||++|.|.|...-..             ++.    +.         .|-                
T Consensus        62 -~~~l~~~---~~~~~d~~ilv~d~~~~~S-------------f~~----~~---------~~~----------------   95 (159)
T cd00154          62 -FRSITPS---YYRGAHGAILVYDITNRES-------------FEN----LD---------KWL----------------   95 (159)
T ss_pred             -HHHHHHH---HHHHCCEEEEECCCCCHHH-------------HHH----HH---------HHH----------------
T ss_conf             -7788999---9754127567244898899-------------999----99---------999----------------


Q ss_pred             HHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             99999889988758741034431326777621023576410100100343011101013467877886436984033210
Q gi|254780226|r  163 QSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIISA  242 (367)
Q Consensus       163 ~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~isa  242 (367)
                          ..    +..      .   .             -..-|+++++||.|.... .....+...+++.+.+..++.+||
T Consensus        96 ----~~----i~~------~---~-------------~~~~~iilvgnK~DL~~~-~~v~~~~~~~~a~~~~~~~~e~SA  144 (159)
T cd00154          96 ----KE----LKE------Y---A-------------PENIPIILVGNKIDLEDQ-RQVSTEEAQQFAKENGLLFFETSA  144 (159)
T ss_pred             ----HH----HHH------H---C-------------CCCCCEEEEEECCCCHHC-CCCCHHHHHHHHHHCCCEEEEECC
T ss_conf             ----99----998------6---8-------------988826999974563011-689999999999986997999876


Q ss_pred             HHHH
Q ss_conf             0246
Q gi|254780226|r  243 AIEA  246 (367)
Q Consensus       243 ~~E~  246 (367)
                      +...
T Consensus       145 k~~~  148 (159)
T cd00154         145 KTGE  148 (159)
T ss_pred             CCCC
T ss_conf             8881


No 105
>cd04151 Arl1 Arl1 subfamily.  Arl1 (Arf-like 1) localizes to the Golgi complex, where it is believed to recruit effector proteins to the trans-Golgi network.  Like most members of the Arf family, Arl1 is myristoylated at its N-terminal helix and mutation of the myristoylation site disrupts Golgi targeting.  In humans, the Golgi-localized proteins golgin-97 and golgin-245 have been identified as Arl1 effectors.  Golgins are large coiled-coil proteins found in the Golgi, and these golgins contain a C-terminal GRIP domain, which is the site of Arl1 binding.  Additional Arl1 effectors include the GARP (Golgi-associated retrograde protein)/VFT (Vps53) vesicle-tethering complex and Arfaptin 2.  Arl1 is not required for exocytosis, but appears necessary for trafficking from the endosomes to the Golgi.  In Drosophila zygotes, mutation of Arl1 is lethal, and in the host-bloodstream form of Trypanosoma brucei, Arl1 is essential for viability.
Probab=98.58  E-value=1e-06  Score=65.10  Aligned_cols=78  Identities=24%  Similarity=0.279  Sum_probs=51.1

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      ||=++|.++||||||++.+.. ...  .+. .+|+..|.-.+..+                 ..++++-|+||    ..+
T Consensus         1 Kil~lG~~~~GKTsll~~~~~-~~~--~~~-~pTig~~~~~i~~~-----------------~~~~~iwD~~G----~e~   55 (158)
T cd04151           1 RILILGLDNAGKTTILYRLQL-GEV--VTT-IPTIGFNVETVTYK-----------------NLKFQVWDLGG----QTS   55 (158)
T ss_pred             CEEEECCCCCCHHHHHHHHHC-CCC--CCC-CCCCCCCEEEEEEC-----------------CEEEEEEECCC----CCC
T ss_conf             999999999989999999970-996--775-78488246999989-----------------88999996798----624


Q ss_pred             CCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             46632899998730374788501234
Q gi|254780226|r   84 GEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        84 G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      -+.+...+   .++||++|.|+|+++
T Consensus        56 ~r~~~~~y---~~~~~~ii~VvD~sd   78 (158)
T cd04151          56 IRPYWRCY---YSNTDAIIYVVDSTD   78 (158)
T ss_pred             CCHHHHHH---CCCCCEEEEEEECCC
T ss_conf             46278874---667889999974578


No 106
>pfam00071 Ras Ras family. Includes sub-families Ras, Rab, Rac, Ral, Ran, Rap Ypt1 and more. Shares P-loop motif with GTP_EFTU, arf and myosin_head. See pfam00009 pfam00025, pfam00063. As regards Rab GTPases, these are important regulators of vesicle formation, motility and fusion. They share a fold in common with all Ras GTPases: this is a six-stranded beta-sheet surrounded by five alpha-helices.
Probab=98.57  E-value=1.8e-06  Score=63.37  Aligned_cols=147  Identities=22%  Similarity=0.215  Sum_probs=80.9

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      ||.++|-|+||||||.+.+... . -...|     .|.+|.-...-      .-.+++   .+.++++.|++|.=.-   
T Consensus         1 Ki~vvG~~~vGKTsli~r~~~~-~-f~~~~-----~~t~~~~~~~~------~~~~~~---~~~~~~i~Dt~G~e~~---   61 (162)
T pfam00071         1 KLVLVGDGGVGKSSLLIRFTQN-K-FPEEY-----IPTIGVDFYTK------TIEVDG---KTVKLQIWDTAGQERF---   61 (162)
T ss_pred             CEEEECCCCCCHHHHHHHHHHC-C-CCCCC-----CCCCEEEEEEE------EEEECC---EEEEEEEEECCCCHHH---
T ss_conf             9899997997799999999619-9-99874-----77413556789------999999---9999999978987204---


Q ss_pred             CCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Q ss_conf             46632899998730374788501234542113457767321578898888764332224577777875203204677789
Q gi|254780226|r   84 GEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLLQ  163 (367)
Q Consensus        84 G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~~  163 (367)
                       ..+   --.-+++||++|.|.|+...+.                                ++.+.              
T Consensus        62 -~~~---~~~~~~~ad~~iivfd~~~~~S--------------------------------~~~i~--------------   91 (162)
T pfam00071        62 -RAL---RPLYYRGAQGFLLVYDITSRDS--------------------------------FENVK--------------   91 (162)
T ss_pred             -HHH---HHHHHCCCCCCEEECCCCCHHH--------------------------------HHHHH--------------
T ss_conf             -678---8998625765504234898899--------------------------------99999--------------


Q ss_pred             HHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCCCH
Q ss_conf             99998899887587410344313267776210235764101001003430111010134678778864369840332100
Q gi|254780226|r  164 SIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIISAA  243 (367)
Q Consensus       164 ~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~isa~  243 (367)
                          .....+..                 .. .    ..-|+++|+||.|.... ..+..+..++++.+.+.+++.+||+
T Consensus        92 ----~~~~~i~~-----------------~~-~----~~~piilvgnK~Dl~~~-~~i~~~e~~~~a~~~~~~y~e~Sak  144 (162)
T pfam00071        92 ----KWLEEILR-----------------HA-D----DNVPIVLVGNKCDLEDQ-RVVSTEEGEALAKELGLPFMETSAK  144 (162)
T ss_pred             ----HHHHHHHH-----------------HC-C----CCCEEEEEEECCCHHHC-CCCCHHHHHHHHHHHCCEEEEECCC
T ss_conf             ----99999998-----------------57-9----88628899752474651-8899999999999809979997378


Q ss_pred             HHH
Q ss_conf             246
Q gi|254780226|r  244 IEA  246 (367)
Q Consensus       244 ~E~  246 (367)
                      .-.
T Consensus       145 ~g~  147 (162)
T pfam00071       145 TNE  147 (162)
T ss_pred             CCC
T ss_conf             882


No 107
>TIGR00691 spoT_relA RelA/SpoT family protein; InterPro: IPR004811   The functions of Escherichia coli RelA and SpoT differ somewhat. RelA (2.7.6.5 from EC) produces pppGpp (or ppGpp) from ATP and GTP (or GDP). SpoT (3.1.7.2 from EC) degrades ppGpp, but may also act as a secondary ppGpp synthetase. The two proteins are strongly similar. In many species, a single homolog to SpoT and RelA appears responsible for both ppGpp synthesis and ppGpp degradation.     (p)ppGpp is a regulatory metabolite of the stringent response, but appears also to be involved in antibiotic biosynthesis in some species.  ; GO: 0015969 guanosine tetraphosphate metabolic process.
Probab=98.56  E-value=1.1e-07  Score=71.67  Aligned_cols=63  Identities=19%  Similarity=0.222  Sum_probs=52.8

Q ss_pred             CCEEEECCCCCCCCCEECCCCCCHHHHHHCCCCHHCCCCEEEEECCHHHHHHCCCHHHHHHCCCEECCC-CEEEECCCCE
Q ss_conf             964661057875454012786767785110012103483699973688877449968888749653157-6079654988
Q gi|254780226|r  282 DLITYFTVGPKETRAWTIPRGTNAQKAAGVIHTDFEKGFIRALTISYKDYVAMGGENAAKEAGKARDEG-KEYIVKDGDI  360 (367)
Q Consensus       282 ~li~~~tvg~~e~~aw~i~~GstA~d~A~~IHtDi~kgFi~A~v~~~~~~~~~~~~~~~k~~g~~r~~G-kdy~v~DGDV  360 (367)
                      .-|.+||   -+.+...+|.|||+.|+||.||||+|..-..|.+=+                   |... -|+.|+.|||
T Consensus       380 ~~i~VFt---P~G~~~~Lp~Gs~~vDfAY~vHtd~G~~~~ga~~ng-------------------~~~~Sl~~~L~nG~v  437 (741)
T TIGR00691       380 EEIYVFT---PKGDVVELPSGSTPVDFAYAVHTDVGHKCTGAKVNG-------------------KIVPSLDKELENGDV  437 (741)
T ss_pred             CCCEEEC---CCEEEEEECCCCCHHHHHHHHCHHHCCEEEEEEECC-------------------EEECCCCEEECCCCE
T ss_conf             5424636---830088746899566778763302434367468978-------------------880344501037868


Q ss_pred             EEEECC
Q ss_conf             999637
Q gi|254780226|r  361 LHFRFN  366 (367)
Q Consensus       361 i~~~fn  366 (367)
                      |+|-|+
T Consensus       438 VEi~t~  443 (741)
T TIGR00691       438 VEIITG  443 (741)
T ss_pred             EEEEEC
T ss_conf             999857


No 108
>PRK11092 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional
Probab=98.56  E-value=8.6e-08  Score=72.32  Aligned_cols=62  Identities=23%  Similarity=0.235  Sum_probs=50.4

Q ss_pred             CCEEEECCCCCCCCCEECCCCCCHHHHHHCCCCHHCCCCEEEEECCHHHHHHCCCHHHHHHCCCEECCCCEEEECCCCEE
Q ss_conf             96466105787545401278676778511001210348369997368887744996888874965315760796549889
Q gi|254780226|r  282 DLITYFTVGPKETRAWTIPRGTNAQKAAGVIHTDFEKGFIRALTISYKDYVAMGGENAAKEAGKARDEGKEYIVKDGDIL  361 (367)
Q Consensus       282 ~li~~~tvg~~e~~aw~i~~GstA~d~A~~IHtDi~kgFi~A~v~~~~~~~~~~~~~~~k~~g~~r~~Gkdy~v~DGDVi  361 (367)
                      +-|-+||=   .-+-..+|+|||+.|+||.||||+|...+-|.|                 .|  |.+--+|.|+.||+|
T Consensus       386 deIyVFTP---kGdii~LP~GsTplDFAYaIHTeiG~~c~GAkV-----------------NG--~~vPL~t~LknGD~V  443 (702)
T PRK11092        386 DEIYVFTP---EGRIVELPAGATPVDFAYAVHTDIGHACVGARV-----------------DR--QPYPLSQPLTSGQTV  443 (702)
T ss_pred             CEEEEECC---CCCEEECCCCCCEEHHHHHHCCHHCCEEEEEEE-----------------CC--EECCCCCCCCCCCEE
T ss_conf             64999879---996798889981001134316410121678999-----------------99--988998716789888


Q ss_pred             EEEC
Q ss_conf             9963
Q gi|254780226|r  362 HFRF  365 (367)
Q Consensus       362 ~~~f  365 (367)
                      +|.-
T Consensus       444 EIiT  447 (702)
T PRK11092        444 EIIT  447 (702)
T ss_pred             EEEE
T ss_conf             9983


No 109
>PRK10872 relA GDP/GTP pyrophosphokinase; Provisional
Probab=98.50  E-value=1.8e-07  Score=70.18  Aligned_cols=62  Identities=24%  Similarity=0.224  Sum_probs=50.1

Q ss_pred             CCEEEECCCCCCCCCEECCCCCCHHHHHHCCCCHHCCCCEEEEECCHHHHHHCCCHHHHHHCCCEECCCCEEEECCCCEE
Q ss_conf             96466105787545401278676778511001210348369997368887744996888874965315760796549889
Q gi|254780226|r  282 DLITYFTVGPKETRAWTIPRGTNAQKAAGVIHTDFEKGFIRALTISYKDYVAMGGENAAKEAGKARDEGKEYIVKDGDIL  361 (367)
Q Consensus       282 ~li~~~tvg~~e~~aw~i~~GstA~d~A~~IHtDi~kgFi~A~v~~~~~~~~~~~~~~~k~~g~~r~~Gkdy~v~DGDVi  361 (367)
                      +-|-+||=   .-+-..+|+||||.|+||.||||+|..-+=|.|=.                   |.+--+|.|+.||+|
T Consensus       404 d~VyVFTP---kGdvi~LP~GaTplDFAYaIHTevG~~cvGAKVNG-------------------kivPL~~~L~nGD~V  461 (743)
T PRK10872        404 DRVYVFTP---KGDVVDLPAGSTPLDFAYHIHSDVGHRCIGAKIGG-------------------RIVPFTYQLQMGDQI  461 (743)
T ss_pred             CEEEEECC---CCCEEECCCCCEEEHHHHHHCCCCHHEEEEEEECC-------------------EECCCCCEECCCCEE
T ss_conf             64999889---98779879997230313543473032188999999-------------------987887452688789


Q ss_pred             EEEC
Q ss_conf             9963
Q gi|254780226|r  362 HFRF  365 (367)
Q Consensus       362 ~~~f  365 (367)
                      +|.=
T Consensus       462 EIiT  465 (743)
T PRK10872        462 EIIT  465 (743)
T ss_pred             EEEC
T ss_conf             9953


No 110
>KOG1424 consensus
Probab=98.43  E-value=2.5e-07  Score=69.22  Aligned_cols=69  Identities=28%  Similarity=0.378  Sum_probs=45.1

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCC-CCC
Q ss_conf             2486752888788899998740489873666867448833799768555877764218650233579998512235-432
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLV-RGA   81 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv-~gA   81 (367)
                      +.||+||+||||||+..|+|-|...+-+...|=-|-.  .-++.+.                  -.+-|.|.|||| |+-
T Consensus       315 vtVG~VGYPNVGKSSTINaLvG~KkVsVS~TPGkTKH--FQTi~ls------------------~~v~LCDCPGLVfPSf  374 (562)
T KOG1424         315 VTVGFVGYPNVGKSSTINALVGRKKVSVSSTPGKTKH--FQTIFLS------------------PSVCLCDCPGLVFPSF  374 (562)
T ss_pred             EEEEEECCCCCCHHHHHHHHHCCCEEEEECCCCCCCC--EEEEEEC------------------CCCEECCCCCCCCCCC
T ss_conf             5887524888762777888755744666348987640--3789707------------------8764447887215687


Q ss_pred             CCCCCCHHHHHH
Q ss_conf             224663289999
Q gi|254780226|r   82 SKGEGLGNQFLA   93 (367)
Q Consensus        82 ~~G~GlGN~FL~   93 (367)
                      +.++.  -.+|+
T Consensus       375 ~~~r~--emvl~  384 (562)
T KOG1424         375 SPTRA--EMVLN  384 (562)
T ss_pred             CCHHH--HHHHH
T ss_conf             71068--99881


No 111
>cd00879 Sar1 Sar1 subfamily.  Sar1 is an essential component of COPII vesicle coats involved in export of cargo from the ER.  The GTPase activity of Sar1 functions as a molecular switch to control protein-protein and protein-lipid interactions that direct vesicle budding from the ER.  Activation of the GDP to the GTP-bound form of Sar1 involves the membrane-associated guanine nucleotide exchange factor (GEF) Sec12.  Sar1 is unlike all Ras superfamily GTPases that use either myristoyl or prenyl groups to direct membrane association and function, in that Sar1 lacks such modification.  Instead, Sar1 contains a unique nine-amino-acid N-terminal extension.  This extension contains an evolutionarily conserved cluster of bulky hydrophobic amino acids, referred to as the Sar1-N-terminal activation recruitment (STAR) motif.  The STAR motif mediates the recruitment of Sar1 to ER membranes and facilitates its interaction with mammalian Sec12 GEF leading to activation.
Probab=98.43  E-value=2e-06  Score=63.05  Aligned_cols=80  Identities=26%  Similarity=0.435  Sum_probs=57.1

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      .+||=++|++|+||||+++.+... .. ....  .|+-+|+-.+.+.+                 .++++.|++|    .
T Consensus        19 ~~kIlilGld~aGKTTil~~l~~~-~~-~~~~--PT~Gfn~e~i~~~~-----------------~~~~~wDvgG----~   73 (190)
T cd00879          19 EAKILFLGLDNAGKTTLLHMLKDD-RL-AQHV--PTLHPTSEELTIGN-----------------IKFKTFDLGG----H   73 (190)
T ss_pred             CCEEEEEECCCCCHHHHHHHHHCC-CC-CEEC--CCCCCCEEEEEECC-----------------EEEEEEECCC----C
T ss_conf             048999906999889999998079-95-3152--65587459999899-----------------9999998999----8


Q ss_pred             CCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             2246632899998730374788501234
Q gi|254780226|r   82 SKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      ..-+.+-..+   .++||+||.|||+++
T Consensus        74 ~~~R~lW~~Y---~~~~~~iIfVVDssD   98 (190)
T cd00879          74 EQARRLWKDY---FPEVDGIVFLVDAAD   98 (190)
T ss_pred             CCCCCCHHHH---HHCCCEEEEEEECCC
T ss_conf             4555438888---431137999997767


No 112
>KOG2484 consensus
Probab=98.42  E-value=3.8e-07  Score=67.96  Aligned_cols=79  Identities=29%  Similarity=0.467  Sum_probs=53.1

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      ++++|+||+||||||++.|+|.......++|.|=-|        .-       +-.+.-     --.|.|+|-||.|+.-
T Consensus       252 sIrvGViG~PNVGKSSvINsL~~~k~C~vg~~pGvT--------~s-------mqeV~L-----dk~i~llDsPgiv~~~  311 (435)
T KOG2484         252 SIRVGIIGYPNVGKSSVINSLKRRKACNVGNVPGVT--------RS-------MQEVKL-----DKKIRLLDSPGIVPPS  311 (435)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHCCCCCCCCCCCH--------HH-------HHHEEC-----CCCCEECCCCCEEECC
T ss_conf             168643248887716999998774046677875500--------35-------453005-----6773230478632067


Q ss_pred             CCCCCCHHHHHHHHHCCCEEEEEE
Q ss_conf             224663289999873037478850
Q gi|254780226|r   82 SKGEGLGNQFLAHIREVDAIIHVL  105 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~aDalihVV  105 (367)
                      ....+     =-.+|+|.-+-+|+
T Consensus       312 ~~~~~-----~~~Lrn~~~i~~~~  330 (435)
T KOG2484         312 IDEKD-----ALALRNCIPIGKVA  330 (435)
T ss_pred             CCCCC-----HHHHHCCCCCCCCC
T ss_conf             78632-----22442366620015


No 113
>COG0317 SpoT Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]
Probab=98.42  E-value=5.3e-07  Score=66.99  Aligned_cols=63  Identities=27%  Similarity=0.344  Sum_probs=51.9

Q ss_pred             CCEEEECCCCCCCCCEECCCCCCHHHHHHCCCCHHCCCCEEEEECCHHHHHHCCCHHHHHHCCCEECCCCEEEECCCCEE
Q ss_conf             96466105787545401278676778511001210348369997368887744996888874965315760796549889
Q gi|254780226|r  282 DLITYFTVGPKETRAWTIPRGTNAQKAAGVIHTDFEKGFIRALTISYKDYVAMGGENAAKEAGKARDEGKEYIVKDGDIL  361 (367)
Q Consensus       282 ~li~~~tvg~~e~~aw~i~~GstA~d~A~~IHtDi~kgFi~A~v~~~~~~~~~~~~~~~k~~g~~r~~Gkdy~v~DGDVi  361 (367)
                      |.+.+||  |+ -+...+|+|||+.|+||.||||+|..-+-|.+-                 |  |.+--+|.|+.||+|
T Consensus       387 d~VyvfT--Pk-G~vi~LP~GatplDFAY~vHt~iG~~c~gAkVn-----------------G--~ivpl~~~Lk~Gd~V  444 (701)
T COG0317         387 DRVYVFT--PK-GKVIDLPKGATPLDFAYAVHTDIGHRCIGAKVN-----------------G--RIVPLTTKLQTGDQV  444 (701)
T ss_pred             CEEEEEC--CC-CCEEECCCCCCHHHHHHHHHCHHCCEEEEEEEC-----------------C--EEECCCEECCCCCEE
T ss_conf             5289988--99-977967999940421243304002504677889-----------------9--981465034789989


Q ss_pred             EEECC
Q ss_conf             99637
Q gi|254780226|r  362 HFRFN  366 (367)
Q Consensus       362 ~~~fn  366 (367)
                      +|-++
T Consensus       445 EIit~  449 (701)
T COG0317         445 EIITS  449 (701)
T ss_pred             EEEEC
T ss_conf             99948


No 114
>pfam00350 Dynamin_N Dynamin family.
Probab=98.36  E-value=6.9e-07  Score=66.21  Aligned_cols=101  Identities=24%  Similarity=0.268  Sum_probs=60.3

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEE-------------EECCCH-----HHHHHHH--------H
Q ss_conf             8675288878889999874048987366686744883379-------------976855-----5877764--------2
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGE-------------VAVPDP-----RMHKLAE--------I   58 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~-------------~~v~d~-----~~~~l~~--------~   58 (367)
                      |.++|--++|||||+|||+|..-...+.-| ||--|..=.             ....+.     .++.+..        .
T Consensus         1 ivvvG~~ssGKSSliNALlG~~ilP~~~~~-~T~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   79 (168)
T pfam00350         1 IAVVGDQSAGKSSVLNALLGRDILPRGPGP-TTRRPLVLRLGEEPGAIPGAVKVEYKDGLKKFEDFSELREEIEDETDKI   79 (168)
T ss_pred             CEEECCCCCCHHHHHHHHHCCCCCCCCCCC-CCCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHH
T ss_conf             989917889899999999788736889976-5167189995788765554121112333001488999999999755431


Q ss_pred             CCC-------------CEEEEEEEEEEECCCCCCCCCCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             186-------------502335799985122354322246632899998730374788501234
Q gi|254780226|r   59 AES-------------KDLVPTRMSFVDIAGLVRGASKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        59 ~~~-------------~~~~p~~i~~iDvaGLv~gA~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      ...             .......+.++|.||+.....+.+   +--.+-++.+|+++.|++|..
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~l~lvDtPGl~s~~~~~~---~~t~~~i~~~d~il~V~~a~~  140 (168)
T pfam00350        80 SGTGKGISSEPIILEILSPLVPGLTLVDTPGLDSVAVGDQ---DLTEEYIKPADIILAVVDANH  140 (168)
T ss_pred             CCCCCCCCCCEEEEEECCCCCCCEEEEECCCCCCCCCCCH---HHHHHHHHHCCEEEEEEECCC
T ss_conf             3457787771089983688888818982798654443369---999999853866999984695


No 115
>cd01892 Miro2 Miro2 subfamily.  Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs.  Genes encoding Miro-like proteins were found in several eukaryotic organisms.  This CD represents the putative GTPase domain in the C terminus of Miro proteins.  These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis.  Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.
Probab=98.36  E-value=1.5e-05  Score=57.13  Aligned_cols=147  Identities=16%  Similarity=0.227  Sum_probs=86.7

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEE--EEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCC
Q ss_conf             24867528887888999987404898736668674488337--9976855587776421865023357999851223543
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSG--EVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRG   80 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g--~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~g   80 (367)
                      +||.++|-++||||++.+..++. .-...+|+ +||.....  .+.++            ++   ...+++-|+||--  
T Consensus         5 fk~~VlG~~~VGKTsLi~rf~~~-~f~~~~y~-~Ti~~~~~~k~v~v~------------g~---~~~L~i~Dt~g~e--   65 (169)
T cd01892           5 FLCFVLGAKGSGKSALLRAFLGR-SFSLNAYS-PTIKPRYAVNTVEVY------------GQ---EKYLILREVGEDE--   65 (169)
T ss_pred             EEEEEECCCCCCHHHHHHHHHCC-CCCCCCCC-CCCCCEEEEEEEEEC------------CE---EEEEEEEECCCCH--
T ss_conf             99999999998899999999649-99866656-754661899999989------------99---9999998556532--


Q ss_pred             CCCCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHH
Q ss_conf             22246632899998730374788501234542113457767321578898888764332224577777875203204677
Q gi|254780226|r   81 ASKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIV  160 (367)
Q Consensus        81 A~~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~  160 (367)
                        ....+...   .+|+||++|.|-|.+.-+             -++++                   .           
T Consensus        66 --~~~~l~~~---~~~~ad~~ilVyDit~~~-------------SF~~i-------------------~-----------   97 (169)
T cd01892          66 --VAILLNDA---ELAACDVACLVYDSSDPK-------------SFSYC-------------------A-----------   97 (169)
T ss_pred             --HHHHHHHH---HHCCCCEEEEEEECCCHH-------------HHHHH-------------------H-----------
T ss_conf             --35566588---754698899999799878-------------99999-------------------9-----------


Q ss_pred             HHHHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCC-CC
Q ss_conf             78999998899887587410344313267776210235764101001003430111010134678778864369840-33
Q gi|254780226|r  161 LLQSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEM-II  239 (367)
Q Consensus       161 ~~~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~-i~  239 (367)
                         .       .++.      .               ......|+++|+||+|.+..+ ....++.++++.+.+... +.
T Consensus        98 ---~-------~~~~------~---------------~~~~~iP~vlVgNK~DL~~~r-qV~~~e~~~~a~~~~~~~~~e  145 (169)
T cd01892          98 ---E-------VYKK------Y---------------FMLGEIPCLFVAAKADLDEQQ-QRYEVQPDEFCRKLGLPPPLH  145 (169)
T ss_pred             ---H-------HHHH------H---------------HCCCCCCEEEEEECCCCCCCC-CCCHHHHHHHHHHCCCCCCEE
T ss_conf             ---9-------9997------0---------------056898189998865542037-546776999999839996669


Q ss_pred             CCCHHHHHH
Q ss_conf             210024665
Q gi|254780226|r  240 ISAAIEAEI  248 (367)
Q Consensus       240 isa~~E~ei  248 (367)
                      +||+....+
T Consensus       146 ~SAktg~nv  154 (169)
T cd01892         146 FSSKLGDSS  154 (169)
T ss_pred             EEEECCCCH
T ss_conf             983279898


No 116
>smart00175 RAB Rab subfamily of small GTPases. Rab GTPases are implicated in vesicle trafficking.
Probab=98.35  E-value=1.9e-05  Score=56.49  Aligned_cols=148  Identities=20%  Similarity=0.245  Sum_probs=82.0

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337997685558777642186502335799985122354322
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      +||-++|-++||||+|.+.++.. .- ...|+ +|+........+          .+++.   ..++++.|.||--.   
T Consensus         1 ~Ki~vvG~~~vGKTsli~r~~~~-~f-~~~~~-~Ti~~~~~~~~i----------~~~~~---~~~l~iwDt~G~e~---   61 (164)
T smart00175        1 FKIILIGDSGVGKSSLLSRFTDG-KF-SEQYK-STIGVDFKTKTI----------EVDGK---RVKLQIWDTAGQER---   61 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHC-CC-CCCCC-CCCCEEEEEEEE----------EECCE---EEEEEEEECCCCHH---
T ss_conf             98999998997799999999419-99-99868-845666677999----------99999---99999996799446---


Q ss_pred             CCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH
Q ss_conf             24663289999873037478850123454211345776732157889888876433222457777787520320467778
Q gi|254780226|r   83 KGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLL  162 (367)
Q Consensus        83 ~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~  162 (367)
                       =+.+-   -...++||++|.|.|...-..          .+               .++ .|-                
T Consensus        62 -~~~l~---~~~~~~~~~~ilvfdi~~~~S----------f~---------------~i~-~w~----------------   95 (164)
T smart00175       62 -FRSIT---SSYYRGAVGALLVYDITNRES----------FE---------------NLK-NWL----------------   95 (164)
T ss_pred             -HHHHH---HHHHCCCCEEEEECCCCCHHH----------HH---------------HHH-HHH----------------
T ss_conf             -64779---988336653688436899899----------99---------------999-999----------------


Q ss_pred             HHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             99999889988758741034431326777621023576410100100343011101013467877886436984033210
Q gi|254780226|r  163 QSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIISA  242 (367)
Q Consensus       163 ~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~isa  242 (367)
                          ..    +.      ..            .    ...-|+++++||.|....+ ....+...+++.+.+..++.+||
T Consensus        96 ----~~----i~------~~------------~----~~~~piilvgnK~Dl~~~r-~V~~~e~~~~a~~~~~~~~e~SA  144 (164)
T smart00175       96 ----KE----LR------EY------------A----DPNVVIMLVGNKSDLEDQR-QVSREEAEAFAEEHGLPFFETSA  144 (164)
T ss_pred             ----HH----HH------HH------------C----CCCCCEEECCCCCCHHHHC-CCCHHHHHHHHHHCCCEEEEECC
T ss_conf             ----99----99------86------------7----9998255116456856518-79999999999984997999831


Q ss_pred             HHHH
Q ss_conf             0246
Q gi|254780226|r  243 AIEA  246 (367)
Q Consensus       243 ~~E~  246 (367)
                      +...
T Consensus       145 k~~~  148 (164)
T smart00175      145 KTNT  148 (164)
T ss_pred             CCCC
T ss_conf             6690


No 117
>cd01863 Rab18 Rab18 subfamily.  Mammalian Rab18 is implicated in endocytic transport and is expressed most highly in polarized epithelial cells. However, trypanosomal Rab, TbRAB18, is upregulated in the BSF (Blood Stream Form) stage and localized predominantly to elements of the Golgi complex.  In human and mouse cells, Rab18 has been identified in lipid droplets, organelles that store neutral lipids. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state.  Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of mos
Probab=98.35  E-value=1.5e-05  Score=57.14  Aligned_cols=150  Identities=20%  Similarity=0.250  Sum_probs=86.4

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337997685558777642186502335799985122354322
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      +||.++|-++||||||+...+.. . -...|+ .|+.++.....+.          .++.   ..++++.|.||.-.   
T Consensus         1 ~KivvvG~~~vGKTsli~r~~~~-~-f~~~~~-~ti~~~~~~~~~~----------~~~~---~~~l~iwDt~g~~~---   61 (161)
T cd01863           1 LKILLIGDSGVGKSSLLLRFTDD-T-FDPDLA-ATIGVDFKVKTLT----------VDGK---KVKLAIWDTAGQER---   61 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHC-C-CCCCCC-CCCCCCCEEEEEE----------ECCE---EEEEEEEECCCCCC---
T ss_conf             98999997995799999999639-9-999848-7313342389999----------9999---99999999999842---


Q ss_pred             CCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH
Q ss_conf             24663289999873037478850123454211345776732157889888876433222457777787520320467778
Q gi|254780226|r   83 KGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLL  162 (367)
Q Consensus        83 ~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~  162 (367)
                       -+.+-..   .+|+||+++.|.|+..-             +-++-+            + .|                 
T Consensus        62 -~~~~~~~---~~~~a~~~ilvfd~~~~-------------~Sf~~i------------~-~~-----------------   94 (161)
T cd01863          62 -FRTLTSS---YYRGAQGVILVYDVTRR-------------DTFTNL------------E-TW-----------------   94 (161)
T ss_pred             -CCCCHHH---HHHHCCEEEEEEECCCH-------------HHHHHH------------H-HH-----------------
T ss_conf             -3534224---41321534899767826-------------569999------------9-99-----------------


Q ss_pred             HHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             99999889988758741034431326777621023576410100100343011101013467877886436984033210
Q gi|254780226|r  163 QSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIISA  242 (367)
Q Consensus       163 ~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~isa  242 (367)
                             ...+.                     .+..-..-|+++|+||.|.+  +.....+...+++.+.+..++.+||
T Consensus        95 -------~~~i~---------------------~~~~~~~~~~ilVgnK~D~~--~~~v~~~~~~~~a~~~~~~y~e~Sa  144 (161)
T cd01863          95 -------LNELE---------------------TYSTNNDIVKMLVGNKIDKE--NREVTREEGLKFARKHNMLFIETSA  144 (161)
T ss_pred             -------HHHHH---------------------HHCCCCCCEEEEEEECCCCC--CCCCCHHHHHHHHHHCCCEEEEECC
T ss_conf             -------99999---------------------85688887378873104400--0689999999999986999999715


Q ss_pred             HHHHHH
Q ss_conf             024665
Q gi|254780226|r  243 AIEAEI  248 (367)
Q Consensus       243 ~~E~ei  248 (367)
                      +....+
T Consensus       145 k~g~nV  150 (161)
T cd01863         145 KTRDGV  150 (161)
T ss_pred             CCCCCH
T ss_conf             868159


No 118
>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=98.32  E-value=1.7e-05  Score=56.79  Aligned_cols=148  Identities=18%  Similarity=0.236  Sum_probs=84.9

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337997685558777642186502335799985122354322
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      .||-++|-++||||+|.+..+.. . =..+|     .|.+|......       -..++.   ..++++.|.||--.-  
T Consensus         1 fKvvlvGd~~VGKTsli~r~~~~-~-F~~~y-----~pTi~~~~~~~-------~~~~~~---~v~l~iwDtaG~e~~--   61 (164)
T cd04139           1 YKVIVVGAGGVGKSALTLQFMYD-E-FVEDY-----EPTKADSYRKK-------VVLDGE---DVQLNILDTAGQEDY--   61 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHC-C-CCCCC-----CCCCCCEEEEE-------EEECCE---EEEEEEEECCCCHHH--
T ss_conf             97999999998899999999719-8-98774-----88544168999-------999999---999999989886624--


Q ss_pred             CCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH
Q ss_conf             24663289999873037478850123454211345776732157889888876433222457777787520320467778
Q gi|254780226|r   83 KGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLL  162 (367)
Q Consensus        83 ~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~  162 (367)
                        +.+-   -..+|+||++|.|.|...-+.             +            +.+..-|++..+            
T Consensus        62 --~~l~---~~~~~~a~~~ilvydvt~~~S-------------f------------~~~~~~~~~~~~------------   99 (164)
T cd04139          62 --AAIR---DNYHRSGEGFLLVFSITDMES-------------F------------TATAEFREQILR------------   99 (164)
T ss_pred             --HHHH---HHHHHHCCEEEEEEECCCHHH-------------H------------HHHHHHHHHHHH------------
T ss_conf             --8899---998863768899997797788-------------9------------999999999998------------


Q ss_pred             HHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             99999889988758741034431326777621023576410100100343011101013467877886436984033210
Q gi|254780226|r  163 QSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIISA  242 (367)
Q Consensus       163 ~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~isa  242 (367)
                                                    .-..    ..-|+++|+||+|.... .....++.++++.+.+..++-+||
T Consensus       100 ------------------------------~~~~----~~~piilVgNK~DL~~~-r~v~~~e~~~~a~~~~~~~~E~SA  144 (164)
T cd04139         100 ------------------------------VKDD----DNVPLLLVGNKCDLEDK-RQVSSEEAANLARQWGVPYVETSA  144 (164)
T ss_pred             ------------------------------HHCC----CCCCEEEEEEEHHHHHC-CCCCHHHHHHHHHHCCCEEEEECC
T ss_conf             ------------------------------6087----88636987330323341-778999999999983998999826


Q ss_pred             HHHH
Q ss_conf             0246
Q gi|254780226|r  243 AIEA  246 (367)
Q Consensus       243 ~~E~  246 (367)
                      +...
T Consensus       145 k~g~  148 (164)
T cd04139         145 KTRQ  148 (164)
T ss_pred             CCCC
T ss_conf             8790


No 119
>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=98.29  E-value=2.7e-05  Score=55.44  Aligned_cols=152  Identities=15%  Similarity=0.133  Sum_probs=85.6

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337997685558777642186502335799985122354322
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      |||-++|-++||||+|....+.. . -...|. .|+......-.+.          .++   ...++++.|.+|.-    
T Consensus         1 lKivvvG~~~vGKTSLi~r~~~~-~-f~~~y~-pTig~~~~~k~~~----------~~~---~~~~l~iwDt~G~~----   60 (168)
T cd04119           1 IKVISMGNSGVGKSCIIKRYCEG-R-FVSKYL-PTIGIDYGVKKVS----------VRN---KEVRVNFFDLSGHP----   60 (168)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHC-C-CCCCCC-CCCCEEEEEEEEE----------ECC---EEEEEEEEECCCCH----
T ss_conf             98999995995689999999639-9-999858-9765577799999----------999---99999999899976----


Q ss_pred             CCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH
Q ss_conf             24663289999873037478850123454211345776732157889888876433222457777787520320467778
Q gi|254780226|r   83 KGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLL  162 (367)
Q Consensus        83 ~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~  162 (367)
                      +-+.+-+.   .+++||++|.|-|+..-..          .+       +|..|..+..                     
T Consensus        61 ~~~~~~~~---~~~~ad~~ilvydit~~~S----------f~-------~l~~w~~~~~---------------------   99 (168)
T cd04119          61 EYLEVRNE---FYKDTQGVLLVYDVTDRQS----------FE-------ALDSWLKEMK---------------------   99 (168)
T ss_pred             HHHHHHHH---HHHHCCEEEEEECCCCHHH----------HH-------HHHHHHHHHH---------------------
T ss_conf             47899999---9874778899950897444----------89-------9999999999---------------------


Q ss_pred             HHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             99999889988758741034431326777621023576410100100343011101013467877886436984033210
Q gi|254780226|r  163 QSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIISA  242 (367)
Q Consensus       163 ~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~isa  242 (367)
                              .++                     ........-|+++++||.|....+ ....+...+++.+.+..++-+||
T Consensus       100 --------~~~---------------------~~~~~~~~~~~ilvgnK~Dl~~~r-~v~~~~~~~~a~~~~~~~~E~Sa  149 (168)
T cd04119         100 --------QEG---------------------GPHGNMENIVVVVCANKIDLTKHR-AVSEDEGRLWAESKGFKYFETSA  149 (168)
T ss_pred             --------HHH---------------------CCCCCCCCCEEEEEEEECCCCCCC-CCCHHHHHHHHHHCCCEEEEECC
T ss_conf             --------982---------------------453456686299985403444257-88999999999986998999885


Q ss_pred             HHH
Q ss_conf             024
Q gi|254780226|r  243 AIE  245 (367)
Q Consensus       243 ~~E  245 (367)
                      +.-
T Consensus       150 k~g  152 (168)
T cd04119         150 CTG  152 (168)
T ss_pred             CCC
T ss_conf             779


No 120
>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH. This family describes YqeH, a member of a larger family of GTPases involved in ribosome biogenesis. Like YqlF, it shows a cyclical permutation relative to GTPases EngA (in which the GTPase domain is duplicated), Era, and others. Members of this protein family are found in a relatively small number of bacterial species, including Bacillus subtilis but not Escherichia coli.
Probab=98.26  E-value=1.1e-06  Score=64.87  Aligned_cols=57  Identities=26%  Similarity=0.479  Sum_probs=38.7

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCC-----CCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCC
Q ss_conf             48675288878889999874048-----9873666867448833799768555877764218650233579998512235
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTA-----SAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLV   78 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~-----~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv   78 (367)
                      ++=+||.+|||||||||++.+..     .+-++.||=||.+.+    ++|=         .+       ...++|.||++
T Consensus       156 dvyvvG~tNvGKSTliN~Ll~~~~~~~~~~T~S~~PGTTL~~i----~i~l---------~~-------~~~i~DTPGi~  215 (360)
T TIGR03597       156 DVYVVGVTNVGKSSLINKLLKQNNGDKDVITTSPFPGTTLDLI----EIPL---------DD-------GHSLYDTPGII  215 (360)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHCCCCCCCEEECCCCCCCCCCE----EEEC---------CC-------CCEEECCCCCC
T ss_conf             5899916866589999999876167777236458998533307----8753---------89-------95574577655


Q ss_pred             CC
Q ss_conf             43
Q gi|254780226|r   79 RG   80 (367)
Q Consensus        79 ~g   80 (367)
                      ..
T Consensus       216 ~~  217 (360)
T TIGR03597       216 NS  217 (360)
T ss_pred             CH
T ss_conf             74


No 121
>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily.  RERG (Ras-related and Estrogen- Regulated Growth inhibitor) and Ras-like 11 are members of a novel subfamily of Ras that were identified based on their behavior in breast and prostate tumors, respectively.  RERG expression was decreased or lost in a significant fraction of primary human breast tumors that lack estrogen receptor and are correlated with poor clinical prognosis.  Elevated RERG expression correlated with favorable patient outcome in a breast tumor subtype that is positive for estrogen receptor expression.  In contrast to most Ras proteins, RERG overexpression inhibited the growth of breast tumor cells in vitro and in vivo.  RasL11 was found to be ubiquitously expressed in human tissue, but down-regulated in prostate tumors.  Both RERG and RasL11 lack the C-terminal CaaX prenylation motif, where a = an aliphatic amino acid and X = any amino acid, and are localized primarily in the cytoplasm.  Both are believed to have tu
Probab=98.23  E-value=6.3e-05  Score=53.00  Aligned_cols=147  Identities=22%  Similarity=0.306  Sum_probs=85.7

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEE-EEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             4867528887888999987404898736668674488337-997685558777642186502335799985122354322
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSG-EVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g-~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      ||-++|-++||||+|.+.....  .=..+|. +|+..+.. .+.            .+++   ...+++.|.||--.-.+
T Consensus         1 Kiv~vGd~~VGKTsli~rf~~~--~f~~~y~-~T~~~~~~~~~~------------v~~~---~~~l~iwDtaG~e~~~~   62 (165)
T cd04146           1 KIAVLGASGVGKSALVVRFLTK--RFIGEYD-PNLESLYSRQVT------------IDGE---QVSLEILDTAGQQQADT   62 (165)
T ss_pred             CEEEECCCCCCHHHHHHHHHHC--CCCCCCC-CCCCCEEEEEEE------------ECCE---EEEEEEEECCCCCCCCH
T ss_conf             9999998997789999999749--8998759-955630579999------------9999---99999992898501220


Q ss_pred             CCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH
Q ss_conf             24663289999873037478850123454211345776732157889888876433222457777787520320467778
Q gi|254780226|r   83 KGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLL  162 (367)
Q Consensus        83 ~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~  162 (367)
                            ......+|.||++|.|-|...-+.             +            +.++ .|                 
T Consensus        63 ------~~~~~~~~~a~~~ilvydit~~~S-------------f------------~~~~-~~-----------------   93 (165)
T cd04146          63 ------EQLERSIRWADGFVLVYSITDRSS-------------F------------DEIS-QL-----------------   93 (165)
T ss_pred             ------HHHHHHCCCCCEEEEEEECCCHHH-------------H------------HHHH-HH-----------------
T ss_conf             ------125543045878999986588899-------------9------------9999-99-----------------


Q ss_pred             HHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             99999889988758741034431326777621023576410100100343011101013467877886436984033210
Q gi|254780226|r  163 QSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIISA  242 (367)
Q Consensus       163 ~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~isa  242 (367)
                             ...+.+                  ....  ...-|+++|+||.|....+ ....++.+++|.+.+..++-+||
T Consensus        94 -------~~~i~~------------------~~~~--~~~~piilVGNK~DL~~~r-~Vs~ee~~~~a~~~~~~f~E~SA  145 (165)
T cd04146          94 -------KQLIRE------------------IKKR--DREIPVILVGNKADLLHYR-QVSTEEGEKLASELGCLFFEVSA  145 (165)
T ss_pred             -------HHHHHH------------------HHCC--CCCCEEEEECCCCCCCCCC-CCCHHHHHHHHHHCCCEEEEEEC
T ss_conf             -------999999------------------8466--9995399844554521036-77999999999981998999752


Q ss_pred             HHH
Q ss_conf             024
Q gi|254780226|r  243 AIE  245 (367)
Q Consensus       243 ~~E  245 (367)
                      +..
T Consensus       146 k~~  148 (165)
T cd04146         146 AED  148 (165)
T ss_pred             CCC
T ss_conf             087


No 122
>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=98.23  E-value=3.5e-05  Score=54.69  Aligned_cols=146  Identities=18%  Similarity=0.232  Sum_probs=85.8

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEE--EEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCC
Q ss_conf             24867528887888999987404898736668674488337--9976855587776421865023357999851223543
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSG--EVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRG   80 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g--~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~g   80 (367)
                      +||-++|-++||||||.+.++..  .-..+|+-| +....-  .+.+            ++.   ...+++.|.||.-. 
T Consensus         1 ~Ki~vvG~~~vGKTsli~r~~~~--~f~~~~~~t-i~~~~~~k~i~~------------~~~---~~~l~iwDt~G~~~-   61 (162)
T cd04123           1 FKVVLLGEGRVGKTSLVLRYVEN--KFNEKHEST-TQASFFQKTVNI------------GGK---RIDLAIWDTAGQER-   61 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHC--CCCCCCCCC-CEEEEEEEEEEE------------CCE---EEEEEEEECCCCCC-
T ss_conf             98999999996799999999839--899876775-264799999999------------999---99999995899730-


Q ss_pred             CCCCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHH
Q ss_conf             22246632899998730374788501234542113457767321578898888764332224577777875203204677
Q gi|254780226|r   81 ASKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIV  160 (367)
Q Consensus        81 A~~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~  160 (367)
                         -+.+...+   +++||+++.|.|...-+.             ++.            ++ .|               
T Consensus        62 ---~~~~~~~~---~~~a~~~ilv~d~t~~~S-------------f~~------------i~-~~---------------   94 (162)
T cd04123          62 ---YHALGPIY---YRDADGAILVYDITDADS-------------FQK------------VK-KW---------------   94 (162)
T ss_pred             ---CCCCCHHH---EECCCEEEEEEECCCHHH-------------HHH------------HH-HH---------------
T ss_conf             ---35563133---011445799963899899-------------999------------99-99---------------


Q ss_pred             HHHHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCC
Q ss_conf             78999998899887587410344313267776210235764101001003430111010134678778864369840332
Q gi|254780226|r  161 LLQSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIII  240 (367)
Q Consensus       161 ~~~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~i  240 (367)
                                  +.+   ++..           . +    ..-|+++++||.|.... ..+..++..+++.+.+..++.+
T Consensus        95 ------------~~~---i~~~-----------~-~----~~~~iilvgnK~Dl~~~-r~v~~~e~~~~a~~~~~~y~e~  142 (162)
T cd04123          95 ------------IKE---LKQM-----------R-G----NNISLVIVGNKIDLERQ-RVVSKSEAEEYAKSVGAKHFET  142 (162)
T ss_pred             ------------HHH---HHHH-----------C-C----CCCCEEEECCCCCCHHH-CCCCHHHHHHHHHHCCCEEEEE
T ss_conf             ------------999---9987-----------6-9----99746866332132540-8889999999999829989998


Q ss_pred             CCHHHH
Q ss_conf             100246
Q gi|254780226|r  241 SAAIEA  246 (367)
Q Consensus       241 sa~~E~  246 (367)
                      ||+...
T Consensus       143 Sak~g~  148 (162)
T cd04123         143 SAKTGK  148 (162)
T ss_pred             ECCCCC
T ss_conf             127881


No 123
>cd00876 Ras Ras family.  The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins.  Ras proteins regulate cell growth, proliferation and differentiation.  Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding.  Many RasGEFs have been identified.  These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras.  Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1.  Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid.  Lipid binding is essential for membrane attachment, a key feature of m
Probab=98.21  E-value=3.9e-05  Score=54.41  Aligned_cols=146  Identities=18%  Similarity=0.241  Sum_probs=81.6

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      ||-|+|-++||||+|.+.+... . =..+|.     |..|......       -.+++   ...++++.|+||.-.    
T Consensus         1 Ki~ivG~~~vGKTsli~r~~~~-~-f~~~~~-----pTi~~~~~~~-------~~~~~---~~~~l~i~Dt~g~~~----   59 (160)
T cd00876           1 KVVVLGAGGVGKSAITIQFVKG-T-FVEEYD-----PTIEDSYRKT-------IVVDG---ETYTLDILDTAGQEE----   59 (160)
T ss_pred             CEEEECCCCCCHHHHHHHHHHC-C-CCCCCC-----CCEEEEEEEE-------EEECC---EEEEEEEEECCCCHH----
T ss_conf             9999996996799999999619-5-998778-----8300489999-------99766---999999997999623----


Q ss_pred             CCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Q ss_conf             46632899998730374788501234542113457767321578898888764332224577777875203204677789
Q gi|254780226|r   84 GEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLLQ  163 (367)
Q Consensus        84 G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~~  163 (367)
                      -+++=.   ..+++||+++.|.|+...+.             ++.            +. .|                  
T Consensus        60 ~~~~~~---~~~~~a~~~ilvfd~~~~~S-------------f~~------------i~-~~------------------   92 (160)
T cd00876          60 FSAMRD---LYIRQGDGFILVYSITDRES-------------FEE------------IK-GY------------------   92 (160)
T ss_pred             HHHHHH---HHHHHCCEEEEEECCCCHHH-------------HHH------------HH-HH------------------
T ss_conf             557889---99764368999732898789-------------999------------99-99------------------


Q ss_pred             HHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCCCH
Q ss_conf             99998899887587410344313267776210235764101001003430111010134678778864369840332100
Q gi|254780226|r  164 SIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIISAA  243 (367)
Q Consensus       164 ~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~isa~  243 (367)
                                            +. +    +....--..-|+++++||.|..... .+..+...+++.+.+..++.+||+
T Consensus        93 ----------------------~~-~----i~~~~~~~~~piilvgnK~Dl~~~~-~V~~~e~~~~a~~~~~~y~e~Sak  144 (160)
T cd00876          93 ----------------------RE-Q----ILRVKDDEDIPIVLVGNKCDLENER-QVSKEEGKALAKEWGCPFIETSAK  144 (160)
T ss_pred             ----------------------HH-H----HHHHHCCCCCEEEEEEECCCCHHCC-CCCHHHHHHHHHHCCCEEEEECCC
T ss_conf             ----------------------99-9----9997287886299999745622307-899999999999849979998479


Q ss_pred             HH
Q ss_conf             24
Q gi|254780226|r  244 IE  245 (367)
Q Consensus       244 ~E  245 (367)
                      .-
T Consensus       145 ~g  146 (160)
T cd00876         145 DN  146 (160)
T ss_pred             CC
T ss_conf             89


No 124
>cd04112 Rab26 Rab26 subfamily.  First identified in rat pancreatic acinar cells, Rab26 is believed to play a role in recruiting mature granules to the plasma membrane upon beta-adrenergic stimulation.  Rab26 belongs to the Rab functional group III, which are considered key regulators of intracellular vesicle transport during exocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state.  Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.  Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.
Probab=98.21  E-value=6.9e-05  Score=52.71  Aligned_cols=149  Identities=19%  Similarity=0.302  Sum_probs=87.0

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEE--EECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCC
Q ss_conf             248675288878889999874048987366686744883379--976855587776421865023357999851223543
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGE--VAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRG   80 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~--~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~g   80 (367)
                      |||-++|-++||||+|+...+.. .-.-.+|. +||......  +.+            ++   ...++++.|.||--. 
T Consensus         1 ~KIv~vGd~~VGKTsli~r~~~~-~f~~~~~~-~Ti~~~~~~k~~~~------------~~---~~v~l~iwDtaG~e~-   62 (191)
T cd04112           1 FKVMLLGDSGVGKTCLLVRFKDG-AFLNGNFI-ATVGIDFRNKVVTV------------DG---VKVKLQIWDTAGQER-   62 (191)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHC-CCCCCCCC-CCCCEEEEEEEEEE------------CC---EEEEEEEEECCCCCC-
T ss_conf             98999994998799999999959-78999867-76524779999999------------99---999999997998633-


Q ss_pred             CCCCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHH
Q ss_conf             22246632899998730374788501234542113457767321578898888764332224577777875203204677
Q gi|254780226|r   81 ASKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIV  160 (367)
Q Consensus        81 A~~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~  160 (367)
                         -+.+-.   ...|+||++|.|.|...-+.          .+.               +. .|               
T Consensus        63 ---~~~l~~---~~~~~a~~~ilvydit~~~S----------f~~---------------l~-~w---------------   95 (191)
T cd04112          63 ---FRSVTH---AYYRDAHALLLLYDITNKAS----------FDN---------------IR-AW---------------   95 (191)
T ss_pred             ---CCCCHH---HHHHCCCEEEEEEECCCHHH----------HHH---------------HH-HH---------------
T ss_conf             ---464647---77117777899972798899----------999---------------99-99---------------


Q ss_pred             HHHHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCC
Q ss_conf             78999998899887587410344313267776210235764101001003430111010134678778864369840332
Q gi|254780226|r  161 LLQSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIII  240 (367)
Q Consensus       161 ~~~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~i  240 (367)
                                  +++   ++.    ...            ..-|+++|+||+|..... ....++..+++.+.+..++-+
T Consensus        96 ------------~~~---i~~----~~~------------~~~~iilVGNK~DL~~~r-~V~~~e~~~~a~~~~~~f~Et  143 (191)
T cd04112          96 ------------LTE---IKE----YAQ------------EDVVIMLLGNKADMSGER-VVKREDGERLAKEYGVPFMET  143 (191)
T ss_pred             ------------HHH---HHH----HCC------------CCCEEEEECCCCCCCCCC-CCCHHHHHHHHHHCCCEEEEE
T ss_conf             ------------999---998----666------------785389861246553026-799999999999829979998


Q ss_pred             CCHHHHHH
Q ss_conf             10024665
Q gi|254780226|r  241 SAAIEAEI  248 (367)
Q Consensus       241 sa~~E~ei  248 (367)
                      ||+....+
T Consensus       144 SAkt~~nI  151 (191)
T cd04112         144 SAKTGLNV  151 (191)
T ss_pred             CCCCCCCH
T ss_conf             54898097


No 125
>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=98.21  E-value=6.6e-05  Score=52.85  Aligned_cols=149  Identities=18%  Similarity=0.176  Sum_probs=85.0

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      .+||-++|-++||||+|.+..+.. .- ..+|     .|.+|.-...     +.. ..++++   .++++.|.||--.  
T Consensus         7 ~~KivllGd~~VGKTsli~r~~~~-~f-~~~~-----~~Tig~d~~~-----k~i-~~~~~~---v~l~iwDtaG~e~--   68 (169)
T cd04114           7 LFKIVLIGNAGVGKTCLVRRFTQG-LF-PPGQ-----GATIGVDFMI-----KTV-EIKGEK---IKLQIWDTAGQER--   68 (169)
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHC-CC-CCCC-----CCCCCEEEEE-----EEE-EECCEE---EEEEEEECCCCCC--
T ss_conf             989999998997999999999859-89-9986-----7741247899-----999-999999---9999998999844--


Q ss_pred             CCCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHH
Q ss_conf             22466328999987303747885012345421134577673215788988887643322245777778752032046777
Q gi|254780226|r   82 SKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVL  161 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~  161 (367)
                        =+.+-   -...|+||+++.|.|...-..             +            +.+. .|-               
T Consensus        69 --~~~l~---~~~~~~a~~~ilvydvt~~~S-------------f------------~~l~-~w~---------------  102 (169)
T cd04114          69 --FRSIT---QSYYRSANALILTYDITCEES-------------F------------RCLP-EWL---------------  102 (169)
T ss_pred             --CCCCH---HHHHHCCCEEEEEECCCCHHH-------------H------------HHHH-HHH---------------
T ss_conf             --45155---777423664599814898889-------------9------------9999-999---------------


Q ss_pred             HHHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf             89999988998875874103443132677762102357641010010034301110101346787788643698403321
Q gi|254780226|r  162 LQSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIIS  241 (367)
Q Consensus       162 ~~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~is  241 (367)
                               ..+.+          ..        .    ..-|+++|+||.|.... .....+..++++.+.+..++-+|
T Consensus       103 ---------~~i~~----------~~--------~----~~~~~ilVGNK~DL~~~-r~v~~~~~~~~a~~~~~~~~E~S  150 (169)
T cd04114         103 ---------REIEQ----------YA--------N----NKVITILVGNKIDLAER-REVSQQRAEEFSDAQDMYYLETS  150 (169)
T ss_pred             ---------HHHHH----------HC--------C----CCCEEEEECCCCCHHHC-CCCCHHHHHHHHHHCCCEEEEEC
T ss_conf             ---------99998----------68--------9----88638973113434541-78899999999998899999986


Q ss_pred             CHHHH
Q ss_conf             00246
Q gi|254780226|r  242 AAIEA  246 (367)
Q Consensus       242 a~~E~  246 (367)
                      |+.-.
T Consensus       151 Aktg~  155 (169)
T cd04114         151 AKESD  155 (169)
T ss_pred             CCCCC
T ss_conf             89880


No 126
>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily.  H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family.  These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation.  Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers.  Many Ras guanine nucleotide exchange factors (GEFs) have been identified.  They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras.  Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities.  Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1.  
Probab=98.20  E-value=3.3e-05  Score=54.90  Aligned_cols=147  Identities=18%  Similarity=0.225  Sum_probs=84.2

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337997685558777642186502335799985122354322
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      .||-++|-++||||+|....+.. . =..+|. +|    +|......-       ..+++   ...+++.|.||--.-  
T Consensus         2 ~KvvlvGd~~VGKTsli~r~~~~-~-F~~~y~-~T----i~~~~~k~~-------~i~~~---~~~l~iwDtaG~e~~--   62 (162)
T cd04138           2 YKLVVVGAGGVGKSALTIQLIQN-H-FVDEYD-PT----IEDSYRKQV-------VIDGE---TCLLDILDTAGQEEY--   62 (162)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHC-C-CCCCCC-CC----CCCEEEEEE-------EECCE---EEEEEEEECCCCCCC--
T ss_conf             39999899998899999999839-2-887568-85----552799999-------99999---999999979986011--


Q ss_pred             CCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH
Q ss_conf             24663289999873037478850123454211345776732157889888876433222457777787520320467778
Q gi|254780226|r   83 KGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLL  162 (367)
Q Consensus        83 ~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~  162 (367)
                        +.+-.   ..+|+||++|.|-|+..-+.          .+.               ++.-|+.+              
T Consensus        63 --~~l~~---~~~~~a~~~ilvydvt~~~S----------f~~---------------v~~w~~~i--------------   98 (162)
T cd04138          63 --SAMRD---QYMRTGEGFLCVFAINSRKS----------FED---------------IHTYREQI--------------   98 (162)
T ss_pred             --CHHHH---HHHCCCCEEEEEEECCCHHH----------HHH---------------HHHHHHHH--------------
T ss_conf             --14789---87157877999961798899----------998---------------99999999--------------


Q ss_pred             HHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             99999889988758741034431326777621023576410100100343011101013467877886436984033210
Q gi|254780226|r  163 QSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIISA  242 (367)
Q Consensus       163 ~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~isa  242 (367)
                                 ..                  .+.   ...-|+++|+||+|...  .....++.++++.+.+..++-+||
T Consensus        99 -----------~~------------------~~~---~~~~piilVgNK~Dl~~--r~V~~~e~~~~a~~~~~~f~E~SA  144 (162)
T cd04138          99 -----------KR------------------VKD---SDDVPMVLVGNKCDLAA--RTVSSRQGQDLAKSYGIPYIETSA  144 (162)
T ss_pred             -----------HH------------------HCC---CCCCEEEEEEEECCHHH--CCCCHHHHHHHHHHCCCEEEEECC
T ss_conf             -----------98------------------548---88854999976535645--558899999999980998999738


Q ss_pred             HHHH
Q ss_conf             0246
Q gi|254780226|r  243 AIEA  246 (367)
Q Consensus       243 ~~E~  246 (367)
                      +...
T Consensus       145 k~~~  148 (162)
T cd04138         145 KTRQ  148 (162)
T ss_pred             CCCC
T ss_conf             9985


No 127
>cd04125 RabA_like RabA-like subfamily.  RabA was first identified in D. discoideum, where its expression levels were compared to other Rabs in growing and developing cells.  The RabA mRNA levels were below the level of detection by Northern blot analysis, suggesting a very low level of expression.  The function of RabA remains unknown.  GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state.  Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.  Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.
Probab=98.17  E-value=8.9e-05  Score=51.99  Aligned_cols=150  Identities=21%  Similarity=0.201  Sum_probs=85.3

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337997685558777642186502335799985122354322
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      +||-++|-++||||+|+...+.. . =..+|. .|+..+...-.+          ..++.   ...+++.|.||--.   
T Consensus         1 ~KivvvGd~~VGKTsli~r~~~~-~-f~~~~~-~Tig~~~~~k~i----------~~~~~---~~~l~iwDtaG~e~---   61 (188)
T cd04125           1 FKVVIIGDYGVGKSSLLKRFTED-E-FSESTK-STIGVDFKIKTV----------YIENK---IIKLQIWDTNGQER---   61 (188)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHC-C-CCCCCC-CCCCEEEEEEEE----------EECCE---EEEEEEEECCCCHH---
T ss_conf             97999999997899999999519-6-899868-865403579999----------99999---99999998999710---


Q ss_pred             CCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH
Q ss_conf             24663289999873037478850123454211345776732157889888876433222457777787520320467778
Q gi|254780226|r   83 KGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLL  162 (367)
Q Consensus        83 ~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~  162 (367)
                       -+.+-   -..+|+||++|.|-|...-+.             ++.            +. .|-.               
T Consensus        62 -~~~l~---~~~~~~a~~~ilvydit~~~S-------------f~~------------l~-~w~~---------------   96 (188)
T cd04125          62 -FRSLN---NSYYRGAHGYLLVYDVTDQES-------------FEN------------LK-FWIN---------------   96 (188)
T ss_pred             -HHHHH---HHHHCCCCEEEEEECCCCHHH-------------HHH------------HH-HHHH---------------
T ss_conf             -45789---998637867999803898789-------------999------------99-9999---------------


Q ss_pred             HHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             99999889988758741034431326777621023576410100100343011101013467877886436984033210
Q gi|254780226|r  163 QSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIISA  242 (367)
Q Consensus       163 ~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~isa  242 (367)
                               .+..      .            .    -...|+++|+||.|.... .....+..++++.+.+..++-+||
T Consensus        97 ---------~i~~------~------------~----~~~~~iilvgNK~DL~~~-r~V~~~e~~~~a~~~~~~~~E~SA  144 (188)
T cd04125          97 ---------EINR------Y------------A----RENVIKVIVANKSDLVNN-KVVDSNIAKSFCDSLNIPFFETSA  144 (188)
T ss_pred             ---------HHHH------H------------C----CCCCCEEEECCHHHHHHC-CCCCHHHHHHHHHHCCCEEEEECC
T ss_conf             ---------9998------7------------8----986624510013447660-679999999999986998999747


Q ss_pred             HHHHHH
Q ss_conf             024665
Q gi|254780226|r  243 AIEAEI  248 (367)
Q Consensus       243 ~~E~ei  248 (367)
                      +....+
T Consensus       145 ktg~nV  150 (188)
T cd04125         145 KQSINV  150 (188)
T ss_pred             CCCCCH
T ss_conf             889098


No 128
>cd04101 RabL4 RabL4 (Rab-like4) subfamily.  RabL4s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like.  As in other Rab-like proteins, RabL4 lacks a prenylation site at the C-terminus.  The specific function of RabL4 remains unknown.
Probab=98.17  E-value=7e-05  Score=52.67  Aligned_cols=148  Identities=18%  Similarity=0.236  Sum_probs=85.3

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEE--EEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCC
Q ss_conf             24867528887888999987404898736668674488337--9976855587776421865023357999851223543
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSG--EVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRG   80 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g--~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~g   80 (367)
                      +||-++|-++||||+|.+........-..+|. .|+..+.-  .+.++           ++ +  ..++++.|.||--  
T Consensus         1 iKivllGd~gVGKTsli~r~~~~~~~f~~~y~-~Tig~~~~~k~~~~~-----------~~-~--~i~l~iwDtaG~e--   63 (164)
T cd04101           1 LRCAVVGDPAVGKTAFVQMFHSNGAVFPKNYL-MTTGCDFVVKEVPVD-----------TD-N--TVELFIFDSAGQE--   63 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHCCCCCCCCCC-CCCCEEEEEEEEEEC-----------CC-C--EEEEEEEECCCCC--
T ss_conf             99999995995889999999978886688888-864578899999978-----------99-7--9999999799984--


Q ss_pred             CCCCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHH
Q ss_conf             22246632899998730374788501234542113457767321578898888764332224577777875203204677
Q gi|254780226|r   81 ASKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIV  160 (367)
Q Consensus        81 A~~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~  160 (367)
                        +-+.+   .-..+|+||++|.|-|...-+.             +            +.+ +.|               
T Consensus        64 --~~~~l---~~~~~~~a~~~ilvydit~~~S-------------f------------~~~-~~w---------------   97 (164)
T cd04101          64 --LYSDM---VSNYWESPSVFILVYDVSNKAS-------------F------------ENC-SRW---------------   97 (164)
T ss_pred             --CHHHH---HHHHHHHCCEEEEEEECCCHHH-------------H------------HHH-HHH---------------
T ss_conf             --00678---9999764268999970774668-------------9------------999-999---------------


Q ss_pred             HHHHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCC
Q ss_conf             78999998899887587410344313267776210235764101001003430111010134678778864369840332
Q gi|254780226|r  161 LLQSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIII  240 (367)
Q Consensus       161 ~~~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~i  240 (367)
                                  +++   ++               ..  -...|+++|+||.|.... .....++.++++...+..++-+
T Consensus        98 ------------~~~---i~---------------~~--~~~~p~ilVgNK~DL~~~-r~V~~~e~~~~a~~~~~~~~E~  144 (164)
T cd04101          98 ------------VNK---VR---------------TA--SKHMPGVLVGNKMDLADK-AEVTDAQAQAFAQANQLKFFKT  144 (164)
T ss_pred             ------------HHH---HH---------------HH--CCCCCEEEEEECCCCCCC-CCCCHHHHHHHHHHCCCEEEEE
T ss_conf             ------------999---99---------------76--689868999872244524-5569999999999889989998


Q ss_pred             CCHHHH
Q ss_conf             100246
Q gi|254780226|r  241 SAAIEA  246 (367)
Q Consensus       241 sa~~E~  246 (367)
                      ||+...
T Consensus       145 SAk~g~  150 (164)
T cd04101         145 SALRGV  150 (164)
T ss_pred             CCCCCC
T ss_conf             668890


No 129
>cd04142 RRP22 RRP22 subfamily.  RRP22 (Ras-related protein on chromosome 22) subfamily consists of proteins that inhibit cell growth and promote caspase-independent cell death.  Unlike most Ras proteins, RRP22 is down-regulated in many human tumor cells due to promoter methylation.  RRP22 localizes to the nucleolus in a GTP-dependent manner, suggesting a novel function in modulating transport of nucleolar components.  Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid.  Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.  Like most Ras family proteins, RRP22 is farnesylated.
Probab=98.17  E-value=4.5e-05  Score=53.98  Aligned_cols=157  Identities=17%  Similarity=0.275  Sum_probs=83.8

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337997685558777642186502335799985122354322
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      +||-++|-++||||+|.+..+.. . =..+|. +||..+.-.-.+          ..+++   +..+++.|+||.-.-.+
T Consensus         1 iKivvlG~~gVGKTsli~rf~~~-~-F~~~y~-pTig~~~~~k~v----------~~dg~---~~~l~IwDtag~~~~~~   64 (198)
T cd04142           1 VRVAVLGAPGVGKTAIVRQFLAQ-E-FPEEYI-PTEHRRLYRPAV----------VLSGR---VYDLHILDVPNMQRYPG   64 (198)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHC-C-CCCCCC-CCCCEEEEEEEE----------EECCE---EEEEEEEECCCCCCCCC
T ss_conf             98999997998999999999719-8-888747-846616789999----------99999---99999995877304555


Q ss_pred             CCCCCHHHHHH----HHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHH
Q ss_conf             24663289999----87303747885012345421134577673215788988887643322245777778752032046
Q gi|254780226|r   83 KGEGLGNQFLA----HIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEE  158 (367)
Q Consensus        83 ~G~GlGN~FL~----~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~  158 (367)
                      -   -|.+|.+    -+|+||++|.|-|....+.          .++++.+..++       .+                
T Consensus        65 t---agqe~~~~r~~~ir~a~~~ilVydvt~~~S----------F~~v~~~~~~i-------~~----------------  108 (198)
T cd04142          65 T---AGQEWMDPRFRGLRNSRAFILVYDICSPDS----------FHYVKLLRQQI-------LE----------------  108 (198)
T ss_pred             C---CCHHHHHHHHHHCCCCCEEEEEEECCCHHH----------HHHHHHHHHHH-------HH----------------
T ss_conf             6---521235556440146888999998867788----------89999999999-------99----------------


Q ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHH-CCCCC
Q ss_conf             77789999988998875874103443132677762102357641010010034301110101346787788643-69840
Q gi|254780226|r  159 IVLLQSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQ-QNAEM  237 (367)
Q Consensus       159 ~~~~~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~-~~~~~  237 (367)
                                          .+.    ...            ..-|+++|+||.|....+- ...++...++.+ .+..+
T Consensus       109 --------------------~~~----~~~------------~~~piiLVGNK~DL~~~R~-v~~~~~~~~a~~~~~~~f  151 (198)
T cd04142         109 --------------------TRP----AGN------------KEPPIVVVGNKRDQQRHRF-APRHVLSVLVRKSWKCGY  151 (198)
T ss_pred             --------------------HHH----CCC------------CCCCEEEEEECCCCCCCCC-CCHHHHHHHHHHCCCCEE
T ss_conf             --------------------851----479------------9982899834543100356-889999999985199769


Q ss_pred             CCCCCHHHHHH
Q ss_conf             33210024665
Q gi|254780226|r  238 IIISAAIEAEI  248 (367)
Q Consensus       238 i~isa~~E~ei  248 (367)
                      +-+||+....+
T Consensus       152 ~EtSAK~~~nV  162 (198)
T cd04142         152 LECSAKYNWHI  162 (198)
T ss_pred             EECCCCCCCCH
T ss_conf             98878899698


No 130
>cd04124 RabL2 RabL2 subfamily.  RabL2 (Rab-like2) subfamily.  RabL2s are novel Rab proteins identified recently which display features that are distinct from other Rabs, and have been termed Rab-like. RabL2 contains RabL2a and RabL2b, two very similar Rab proteins that share  98% sequence identity in humans. RabL2b maps to the subtelomeric region of chromosome 22q13.3 and RabL2a maps to 2q13, a region that suggests it is also a subtelomeric gene. Both genes are believed to be expressed ubiquitously, suggesting that RabL2s are the first example of duplicated genes in human proximal subtelomeric regions that are both expressed actively. Like other Rab-like proteins, RabL2s lack a prenylation site at the C-terminus. The specific functions of RabL2a and RabL2b remain unknown.  GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-b
Probab=98.16  E-value=7e-05  Score=52.66  Aligned_cols=146  Identities=19%  Similarity=0.190  Sum_probs=84.8

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337997685558777642186502335799985122354322
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      +||-++|-++||||+|....+.. . =..+|. +|+..+...-.+          ..+++   ..++++.|.||-    .
T Consensus         1 iKivllGd~~VGKTsli~r~~~~-~-f~~~~~-~Tig~~~~~~~~----------~~~~~---~~~l~iwDtaG~----e   60 (161)
T cd04124           1 VKIILLGDSAVGKSKLVERFLMD-G-YEPQQL-STYALTLYKHNA----------KFEGK---TILVDFWDTAGQ----E   60 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHC-C-CCCCCC-CCCCEEEEEEEE----------EECCE---EEEEEEEECCCC----C
T ss_conf             98999998996789999999809-7-799726-654157999999----------99999---999999979998----4


Q ss_pred             CCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH
Q ss_conf             24663289999873037478850123454211345776732157889888876433222457777787520320467778
Q gi|254780226|r   83 KGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLL  162 (367)
Q Consensus        83 ~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~  162 (367)
                      +=+.+...   -.|+|+++|.|-|....+.             +            +.++ .|-                
T Consensus        61 ~f~~~~~~---y~~~a~~~ilvfDit~~~S-------------f------------~~~~-~w~----------------   95 (161)
T cd04124          61 RFQTMHAS---YYHKAHACILVFDVTRKIT-------------Y------------KNLS-KWY----------------   95 (161)
T ss_pred             CCCHHHHH---HHCCCCEEEEEEECCCHHH-------------H------------HHHH-HHH----------------
T ss_conf             34324699---7356876799996897788-------------9------------9999-999----------------


Q ss_pred             HHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             99999889988758741034431326777621023576410100100343011101013467877886436984033210
Q gi|254780226|r  163 QSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIISA  242 (367)
Q Consensus       163 ~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~isa  242 (367)
                              ..+.+      .    .             ..-|+++|+||+|.+..   . .++..+++.+.+..++.+||
T Consensus        96 --------~~i~~------~----~-------------~~~p~ilVgNK~DL~~~---~-~~~~~~~a~~~~~~f~etSA  140 (161)
T cd04124          96 --------EELRE------Y----R-------------PEIPCIVVANKIDLDPS---V-TQKKFNFAEKHNLPLYYVSA  140 (161)
T ss_pred             --------HHHHH------H----C-------------CCCCEEEEEECCCCCCH---H-HHHHHHHHHHCCCEEEEEEC
T ss_conf             --------99998------6----8-------------69989999997117742---5-89999999986991999907


Q ss_pred             HHHHHH
Q ss_conf             024665
Q gi|254780226|r  243 AIEAEI  248 (367)
Q Consensus       243 ~~E~ei  248 (367)
                      +...-+
T Consensus       141 k~g~nV  146 (161)
T cd04124         141 ADGTNV  146 (161)
T ss_pred             CCCCCH
T ss_conf             838097


No 131
>cd04143 Rhes_like Rhes_like subfamily.  This subfamily includes Rhes (Ras homolog enriched in striatum) and Dexras1/AGS1 (activator of G-protein signaling 1).  These proteins are homologous, but exhibit significant differences in tissue distribution and subcellular localization.  Rhes is found primarily in the striatum of the brain, but is also expressed in other areas of the brain, such as the cerebral cortex, hippocampus, inferior colliculus, and cerebellum.  Rhes expression is controlled by thyroid hormones.  In rat PC12 cells, Rhes is farnesylated and localizes to the plasma membrane.  Rhes binds and activates PI3K, and plays a role in coupling serpentine membrane receptors with heterotrimeric G-protein signaling.  Rhes has recently been shown to be reduced under conditions of dopamine supersensitivity and may play a role in determining dopamine receptor sensitivity.  Dexras1/AGS1 is a dexamethasone-induced Ras protein that is expressed primarily in the brain, with low expression l
Probab=98.15  E-value=0.00024  Score=49.06  Aligned_cols=157  Identities=16%  Similarity=0.225  Sum_probs=88.1

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCC-EEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             248675288878889999874048987366686744883-3799768555877764218650233579998512235432
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPN-SGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn-~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      .||-++|-++||||++.+..+...  =..+|. .||+-. .-.+.+            +++   ..++++.|.||-    
T Consensus         1 yKIvvlGdsgVGKTSLi~Rf~~~~--F~~~y~-pTi~d~~~k~i~i------------~g~---~v~L~IwDTaGq----   58 (247)
T cd04143           1 YRMVVLGASKVGKTAIVSRFLGGR--FEEQYT-PTIEDFHRKLYSI------------RGE---VYQLDILDTSGN----   58 (247)
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCC--CCCCCC-CCHHHEEEEEEEE------------CCE---EEEEEEEECCCC----
T ss_conf             979999989978999999996496--899878-8835318899999------------999---999999967665----


Q ss_pred             CCCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHH
Q ss_conf             22466328999987303747885012345421134577673215788988887643322245777778752032046777
Q gi|254780226|r   82 SKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVL  161 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~  161 (367)
                      .+-..+-..+   ++++|++|.|-|...-+       +   .+++       ..|.-++.+-+|..              
T Consensus        59 e~f~sl~~~y---~~~a~~~IlVYDITnr~-------S---Fe~v-------~~w~~~I~e~k~~~--------------  104 (247)
T cd04143          59 HPFPAMRRLS---ILTGDVFILVFSLDNRE-------S---FEEV-------CRLREQILETKSCL--------------  104 (247)
T ss_pred             CCCCCCHHHH---HHCCCEEEEEEECCCHH-------H---HHHH-------HHHHHHHHHHHCCC--------------
T ss_conf             3687442013---12177899999799878-------9---9989-------99999999864001--------------


Q ss_pred             HHHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHH-HHHCCCCCCCC
Q ss_conf             89999988998875874103443132677762102357641010010034301110101346787788-64369840332
Q gi|254780226|r  162 LQSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRL-ASQQNAEMIII  240 (367)
Q Consensus       162 ~~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l-~~~~~~~~i~i  240 (367)
                                  ..    +      ..       +   ...-|+++|.||.|.+..+ ....++.+++ +...+..++-+
T Consensus       105 ------------~~----~------~~-------~---~~~vpiiLVGNK~DL~~~R-~Vs~eEa~~~~A~~~~~~f~Et  151 (247)
T cd04143         105 ------------KN----K------TK-------E---NVKIPMVICGNKADRDFPR-EVQRDEVEQLVGGDENCAYFEV  151 (247)
T ss_pred             ------------CC----C------CC-------C---CCCCCEEEEEECCCCHHCC-CCCHHHHHHHHHHHCCCEEEEC
T ss_conf             ------------00----1------35-------7---8887589986655432017-8799999999997689879988


Q ss_pred             CCHHHHHH
Q ss_conf             10024665
Q gi|254780226|r  241 SAAIEAEI  248 (367)
Q Consensus       241 sa~~E~ei  248 (367)
                      ||+....+
T Consensus       152 SAKt~~NV  159 (247)
T cd04143         152 SAKKNSNL  159 (247)
T ss_pred             CCCCCCCH
T ss_conf             78999498


No 132
>cd01868 Rab11_like Rab11-like.  Rab11a, Rab11b, and Rab25 are closely related, evolutionary conserved Rab proteins that are differentially expressed. Rab11a is ubiquitously synthesized, Rab11b is enriched in brain and heart and Rab25 is only found in epithelia. Rab11/25 proteins seem to regulate recycling pathways from endosomes to the plasma membrane and to the trans-Golgi network. Furthermore, Rab11a is thought to function in the histamine-induced fusion of tubulovesicles containing H+, K+ ATPase with the plasma membrane in gastric parietal cells and in insulin-stimulated insertion of GLUT4 in the plasma membrane of cardiomyocytes. Overexpression of Rab25 has recently been observed in ovarian cancer and breast cancer, and has been correlated with worsened outcomes in both diseases. In addition, Rab25 overexpression has also been observed in prostate cancer, transitional cell carcinoma of the bladder, and invasive breast tumor cells. GTPase activating proteins (GAPs) interact with GTP
Probab=98.15  E-value=7.2e-05  Score=52.58  Aligned_cols=149  Identities=23%  Similarity=0.255  Sum_probs=84.7

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      .+||-++|-++||||+|++..+.. . =..+|+ +||......-.+          -.+++   ..++++.|+||--.  
T Consensus         3 ~~Kiv~iGd~~VGKTsli~r~~~~-~-f~~~~~-~Tig~~~~~k~i----------~~~~~---~~~l~iwDtaG~e~--   64 (165)
T cd01868           3 LFKIVLIGDSGVGKSNLLSRFTRN-E-FNLDSK-STIGVEFATRSI----------QIDGK---TIKAQIWDTAGQER--   64 (165)
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHC-C-CCCCCC-CCCCEEEEEEEE----------EECCE---EEEEEEEECCCCHH--
T ss_conf             589999999997899999999729-8-999889-874478789999----------99999---99999998999721--


Q ss_pred             CCCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHH
Q ss_conf             22466328999987303747885012345421134577673215788988887643322245777778752032046777
Q gi|254780226|r   82 SKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVL  161 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~  161 (367)
                        =+.+-+   ...|+||++|.|.|...-..             +            +.++ .|                
T Consensus        65 --~~~~~~---~~~~~a~~~ilvydit~~~S-------------f------------~~i~-~w----------------   97 (165)
T cd01868          65 --YRAITS---AYYRGAVGALLVYDITKKQT-------------F------------ENVE-RW----------------   97 (165)
T ss_pred             --HHHHHH---HHHHHCCCEEEEEECCCHHH-------------H------------HHHH-HH----------------
T ss_conf             --267899---87332051489862698899-------------9------------9999-99----------------


Q ss_pred             HHHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf             89999988998875874103443132677762102357641010010034301110101346787788643698403321
Q gi|254780226|r  162 LQSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIIS  241 (367)
Q Consensus       162 ~~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~is  241 (367)
                                 +++   ++..    .        .    ...|+++|+||.|.... .....+...+++.+.+..++.+|
T Consensus        98 -----------~~~---i~~~----~--------~----~~~~iilVgnK~DL~~~-r~Vs~~e~~~~a~~~~~~~~E~S  146 (165)
T cd01868          98 -----------LKE---LRDH----A--------D----SNIVIMLVGNKSDLRHL-RAVPTEEAKAFAEKNGLSFIETS  146 (165)
T ss_pred             -----------HHH---HHHH----C--------C----CCCEEEEECCCCCHHHH-CCCCHHHHHHHHHHCCCEEEEEC
T ss_conf             -----------999---9985----5--------5----77359870234786885-78889999999998599799967


Q ss_pred             CHHHH
Q ss_conf             00246
Q gi|254780226|r  242 AAIEA  246 (367)
Q Consensus       242 a~~E~  246 (367)
                      |+...
T Consensus       147 Ak~g~  151 (165)
T cd01868         147 ALDGT  151 (165)
T ss_pred             CCCCC
T ss_conf             88892


No 133
>cd04144 Ras2 Ras2 subfamily.  The Ras2 subfamily, found exclusively in fungi, was first identified in Ustilago maydis.  In U. maydis, Ras2 is regulated by Sql2, a protein that is homologous to GEFs (guanine nucleotide exchange factors) of the CDC25 family.  Ras2 has been shown to induce filamentous growth, but the signaling cascade through which Ras2 and Sql2 regulate cell morphology is not known.  Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid.  Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.
Probab=98.14  E-value=5e-05  Score=53.65  Aligned_cols=148  Identities=22%  Similarity=0.279  Sum_probs=84.4

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      ||-++|-+.||||+|+...+...  =..+|     .|.+|..+...       -..+++   ...+++.|.||--.-   
T Consensus         1 KivviGd~gVGKTsli~r~~~~~--F~~~y-----~pTi~~~~~k~-------~~~~~~---~~~l~iwDtaG~e~~---   60 (190)
T cd04144           1 KLVVLGDGGVGKTALTIQLCLNH--FVETY-----DPTIEDSYRKQ-------VVVDGQ---PCMLEVLDTAGQEEY---   60 (190)
T ss_pred             CEEEECCCCCCHHHHHHHHHHCC--CCCCC-----CCCCCEEEEEE-------EEECCE---EEEEEEEECCCCCCH---
T ss_conf             98999989987899999996297--99886-----99724788999-------999999---999999989997311---


Q ss_pred             CCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHCCCHHHHHHH
Q ss_conf             46632899998730374788501234542113457767321578898888764332224577-77787520320467778
Q gi|254780226|r   84 GEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLF-EKNKKYRNHKSEEIVLL  162 (367)
Q Consensus        84 G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~-~k~~k~~~~~~~~~~~~  162 (367)
                       ..+-   -..+|+||++|.|-|...-..          .+.               ++ .| +.+.+.           
T Consensus        61 -~~l~---~~~~r~a~~~ilVydvtd~~S----------F~~---------------l~-~w~~~i~~~-----------   99 (190)
T cd04144          61 -TALR---DQWIREGEGFILVYSITSRST----------FER---------------VE-RFREQIQRV-----------   99 (190)
T ss_pred             -HHHH---HHHHCCCCEEEEEEECCCHHH----------HHH---------------HH-HHHHHHHHH-----------
T ss_conf             -6788---998236765899972797789----------999---------------99-999999998-----------


Q ss_pred             HHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             99999889988758741034431326777621023576410100100343011101013467877886436984033210
Q gi|254780226|r  163 QSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIISA  242 (367)
Q Consensus       163 ~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~isa  242 (367)
                                       +.   ..             ...-|+++|+||.|.... .....++..+++.+.+..++-+||
T Consensus       100 -----------------~~---~~-------------~~~~piiLVGNK~Dl~~~-r~V~~~e~~~~a~~~~~~~~E~SA  145 (190)
T cd04144         100 -----------------KD---ES-------------AADVPIMIVGNKCDKVYE-REVSTEEGAALARRLGCEFIEASA  145 (190)
T ss_pred             -----------------HH---CC-------------CCCCEEEECCCCCCHHHC-CCCCHHHHHHHHHHCCCEEEEECC
T ss_conf             -----------------53---37-------------999528951455350330-578999999999980998999735


Q ss_pred             HHHH
Q ss_conf             0246
Q gi|254780226|r  243 AIEA  246 (367)
Q Consensus       243 ~~E~  246 (367)
                      +...
T Consensus       146 k~~~  149 (190)
T cd04144         146 KTNV  149 (190)
T ss_pred             CCCC
T ss_conf             8880


No 134
>cd04113 Rab4 Rab4 subfamily.  Rab4 has been implicated in numerous functions within the cell.  It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A.  Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane.  It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11.  GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to p
Probab=98.14  E-value=0.00012  Score=51.15  Aligned_cols=148  Identities=18%  Similarity=0.220  Sum_probs=83.1

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337997685558777642186502335799985122354322
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      +||=++|-++||||+|++..+...  -..+|     .|.+|.-...-     ... .+++   ..++++.|.||-    .
T Consensus         1 ~Kivl~Gd~~vGKTsli~r~~~~~--f~~~~-----~~Tig~~~~~k-----~~~-~~~~---~~~l~iwDtaG~----e   60 (161)
T cd04113           1 FKFIIIGSSGTGKSCLLHRFVENK--FKEDS-----QHTIGVEFGSK-----IIR-VGGK---RVKLQIWDTAGQ----E   60 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHCC--CCCCC-----CCCCCEEEEEE-----EEE-ECCE---EEEEEEEECCCC----H
T ss_conf             989999949967999999997298--99987-----99764578999-----999-9999---999999989997----0


Q ss_pred             CCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH
Q ss_conf             24663289999873037478850123454211345776732157889888876433222457777787520320467778
Q gi|254780226|r   83 KGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLL  162 (367)
Q Consensus        83 ~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~  162 (367)
                      +-+.+   --..+|+||++|.|.|...-+.             ++-    +.         .|                 
T Consensus        61 ~~~~~---~~~~~~~a~~~ilvydit~~~S-------------f~~----~~---------~w-----------------   94 (161)
T cd04113          61 RFRSV---TRSYYRGAAGALLVYDITNRTS-------------FEA----LP---------TW-----------------   94 (161)
T ss_pred             HHHHH---HHHHHHCCCEEEEECCCCCHHH-------------HHH----HH---------HH-----------------
T ss_conf             12267---8998405777899536898899-------------999----99---------99-----------------


Q ss_pred             HHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             99999889988758741034431326777621023576410100100343011101013467877886436984033210
Q gi|254780226|r  163 QSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIISA  242 (367)
Q Consensus       163 ~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~isa  242 (367)
                                +++   ++..            .+    ..-|+++|+||+|..... ....++.++++.+.+..++.+||
T Consensus        95 ----------~~~---i~~~------------~~----~~~~iilVgNK~Dl~~~r-~V~~~e~~~~a~~~~~~~~E~SA  144 (161)
T cd04113          95 ----------LSD---ARAL------------AS----PNIVVILVGNKSDLADQR-EVTFLEASRFAQENGLLFLETSA  144 (161)
T ss_pred             ----------HHH---HHHH------------CC----CCCEEEEECCCCCCHHCC-CCCHHHHHHHHHHCCCEEEEECC
T ss_conf             ----------999---9986------------79----996498603434400037-88999999999985997999741


Q ss_pred             HHHH
Q ss_conf             0246
Q gi|254780226|r  243 AIEA  246 (367)
Q Consensus       243 ~~E~  246 (367)
                      +...
T Consensus       145 k~~~  148 (161)
T cd04113         145 LTGE  148 (161)
T ss_pred             CCCC
T ss_conf             5690


No 135
>KOG0073 consensus
Probab=98.12  E-value=3e-05  Score=55.13  Aligned_cols=140  Identities=19%  Similarity=0.228  Sum_probs=86.0

Q ss_pred             CCCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEE----EECCCHHHHHHHHHCCCCEEEEEEEEEEECCC
Q ss_conf             98248675288878889999874048987366686744883379----97685558777642186502335799985122
Q gi|254780226|r    1 MGFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGE----VAVPDPRMHKLAEIAESKDLVPTRMSFVDIAG   76 (367)
Q Consensus         1 m~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~----~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaG   76 (367)
                      |-|+|=|+|+-|+||||+.+.+-+ .+       --||+|..|.    +..++                 .++++.||.|
T Consensus        15 rE~riLiLGLdNsGKTti~~kl~~-~~-------~~~i~pt~gf~Iktl~~~~-----------------~~L~iwDvGG   69 (185)
T KOG0073          15 REVRILILGLDNSGKTTIVKKLLG-ED-------TDTISPTLGFQIKTLEYKG-----------------YTLNIWDVGG   69 (185)
T ss_pred             HEEEEEEEECCCCCCHHHHHHHCC-CC-------CCCCCCCCCEEEEEEEECC-----------------EEEEEEECCC
T ss_conf             344799991278982448988538-98-------2232872113557877424-----------------2899997488


Q ss_pred             CCCCCCCCCCCHHHHHHH-HHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             354322246632899998-7303747885012345421134577673215788988887643322245777778752032
Q gi|254780226|r   77 LVRGASKGEGLGNQFLAH-IREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHK  155 (367)
Q Consensus        77 Lv~gA~~G~GlGN~FL~~-ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~  155 (367)
                      =...        ..|..+ -.++||+|.|||.++            |.                    +++         
T Consensus        70 q~~l--------r~~W~nYfestdglIwvvDssD------------~~--------------------r~~---------  100 (185)
T KOG0073          70 QKTL--------RSYWKNYFESTDGLIWVVDSSD------------RM--------------------RMQ---------  100 (185)
T ss_pred             CCHH--------HHHHHHHHHCCCEEEEEEECCH------------HH--------------------HHH---------
T ss_conf             5336--------8788776650472899997720------------88--------------------899---------


Q ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCC-CHH--HHHHHHHHHHH
Q ss_conf             046777899999889988758741034431326777621023576410100100343011101-013--46787788643
Q gi|254780226|r  156 SEEIVLLQSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKK-GNI--YTEAVQRLASQ  232 (367)
Q Consensus       156 ~~~~~~~~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~-~n~--~~e~i~~l~~~  232 (367)
                              +....+.+.|.                     .-++. -+|++++|||.|.+.+- .+.  +.-.+.+++++
T Consensus       101 --------e~~~~L~~lL~---------------------eerla-G~~~Lvlank~dl~~~l~~~~i~~~~~L~~l~ks  150 (185)
T KOG0073         101 --------ECKQELTELLV---------------------EERLA-GAPLLVLANKQDLPGALSLEEISKALDLEELAKS  150 (185)
T ss_pred             --------HHHHHHHHHHH---------------------HHHHC-CCCEEEEEECCCCCCCCCHHHHHHHHCHHHHCCC
T ss_conf             --------99999999975---------------------65434-8843999734768552478788876477876133


Q ss_pred             CCCCCCCCCCHH
Q ss_conf             698403321002
Q gi|254780226|r  233 QNAEMIIISAAI  244 (367)
Q Consensus       233 ~~~~~i~isa~~  244 (367)
                      ....++-+||-.
T Consensus       151 ~~~~l~~cs~~t  162 (185)
T KOG0073         151 HHWRLVKCSAVT  162 (185)
T ss_pred             CCCEEEEEECCC
T ss_conf             672289985454


No 136
>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily.  Rab1 is found in every eukaryote and is a key regulatory component for the transport of vesicles from the ER to the Golgi apparatus. Studies on mutations of Ypt1, the yeast homolog of Rab1, showed that this protein is necessary for the budding of vesicles of the ER as well as for their transport to, and fusion with, the Golgi apparatus. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state.  Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.  Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.  Due to t
Probab=98.12  E-value=0.00015  Score=50.49  Aligned_cols=151  Identities=21%  Similarity=0.226  Sum_probs=87.9

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      .+||-++|-++||||+|....+.. . =..+|. +||..+...-.+.          .+++   ..++++.|.||--   
T Consensus         2 ~~Kiv~vGd~~vGKTsli~r~~~~-~-f~~~y~-~Tig~~~~~~~i~----------~~~~---~~~l~iwDtaG~e---   62 (166)
T cd01869           2 LFKLLLIGDSGVGKSCLLLRFADD-T-YTESYI-STIGVDFKIRTIE----------LDGK---TIKLQIWDTAGQE---   62 (166)
T ss_pred             EEEEEEECCCCCCHHHHHHHHHCC-C-CCCCCC-CCCCEEEEEEEEE----------ECCE---EEEEEEEECCCCC---
T ss_conf             699999999997899999999439-9-998747-8544048999999----------9999---9999999899982---


Q ss_pred             CCCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHH
Q ss_conf             22466328999987303747885012345421134577673215788988887643322245777778752032046777
Q gi|254780226|r   82 SKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVL  161 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~  161 (367)
                       +-+.+-..   ..|+||++|.|.|....+.          .+.               +. .|                
T Consensus        63 -~~~~~~~~---~~~~a~~~ilvfdit~~~S----------f~~---------------i~-~w----------------   96 (166)
T cd01869          63 -RFRTITSS---YYRGAHGIIIVYDVTDQES----------FNN---------------VK-QW----------------   96 (166)
T ss_pred             -CCCCCHHH---HHHHCCEEEEEECCCCHHH----------HHH---------------HH-HH----------------
T ss_conf             -34626788---8563267799711799899----------999---------------99-99----------------


Q ss_pred             HHHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf             89999988998875874103443132677762102357641010010034301110101346787788643698403321
Q gi|254780226|r  162 LQSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIIS  241 (367)
Q Consensus       162 ~~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~is  241 (367)
                              ...+..      .            .    -..-|+++++||.|.... .....+...+++.+.+..++.+|
T Consensus        97 --------~~~i~~------~------------~----~~~~~~ilvgNK~DL~~~-r~v~~~~~~~~a~~~~~~~~E~S  145 (166)
T cd01869          97 --------LQEIDR------Y------------A----SENVNKLLVGNKCDLTDK-RVVDYSEAQEFADELGIPFLETS  145 (166)
T ss_pred             --------HHHHHH------H------------C----CCCCCEEEEEEEECCCCC-CCCCHHHHHHHHHHCCCEEEEEC
T ss_conf             --------999998------6------------7----877744886132011314-66799999999998399699987


Q ss_pred             CHHHHHH
Q ss_conf             0024665
Q gi|254780226|r  242 AAIEAEI  248 (367)
Q Consensus       242 a~~E~ei  248 (367)
                      |+...-+
T Consensus       146 Ak~g~nI  152 (166)
T cd01869         146 AKNATNV  152 (166)
T ss_pred             CCCCCCH
T ss_conf             6878068


No 137
>cd04127 Rab27A Rab27a subfamily.  The Rab27a subfamily consists of Rab27a and its highly homologous isoform, Rab27b.  Unlike most Rab proteins whose functions remain poorly defined, Rab27a has many known functions.  Rab27a has multiple effector proteins, and depending on which effector it binds, Rab27a has different functions as well as tissue distribution and/or cellular localization. Putative functions have been assigned to Rab27a when associated with the effector proteins Slp1, Slp2, Slp3, Slp4, Slp5, DmSlp, rabphilin, Dm/Ce-rabphilin, Slac2-a, Slac2-b, Slac2-c, Noc2, JFC1, and Munc13-4. Rab27a has been associated with several human diseases, including hemophagocytic syndrome (Griscelli syndrome or GS), Hermansky-Pudlak syndrome, and choroidermia. In the case of GS, a rare, autosomal recessive disease, a Rab27a mutation is directly responsible for the disorder.  When Rab27a is localized to the secretory granules of pancreatic beta cells, it is believed to mediate glucose-stimulated 
Probab=98.12  E-value=7.1e-05  Score=52.65  Aligned_cols=160  Identities=14%  Similarity=0.138  Sum_probs=85.0

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      .+||-++|-++||||+|....+... - ..+|- +|+......-.+.-.....-....++   .-+++++.|+||-=   
T Consensus         4 ~~KivvvGd~~VGKTsli~r~~~~~-f-~~~y~-~Tig~~~~~k~i~~~~~~~~~~~~~~---~~v~l~iwDtaGqe---   74 (180)
T cd04127           4 LIKFLALGDSGVGKTSFLYQYTDNK-F-NPKFI-TTVGIDFREKRVVYNSSGPGGTLGRG---QRIHLQLWDTAGQE---   74 (180)
T ss_pred             EEEEEEECCCCCCHHHHHHHHHCCC-C-CCCCC-CCCCEEEEEEEEEECCCCCCCCCCCC---CEEEEEEEECCCCH---
T ss_conf             8899999999988899999996195-8-99868-84322688999998476554445788---58999999898863---


Q ss_pred             CCCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHH
Q ss_conf             22466328999987303747885012345421134577673215788988887643322245777778752032046777
Q gi|254780226|r   82 SKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVL  161 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~  161 (367)
                       +-+.+-   -..+|+|+++|.|-|....+.          .+.               +. .|-               
T Consensus        75 -~~~~l~---~~~~~~a~~~ilvydit~~~S----------f~~---------------l~-~w~---------------  109 (180)
T cd04127          75 -RFRSLT---TAFFRDAMGFLLIFDLTNEQS----------FLN---------------VR-NWM---------------  109 (180)
T ss_pred             -HHHHHH---HHHHHHHCEEEEEEECCCHHH----------HHH---------------HH-HHH---------------
T ss_conf             -047888---999875436589996898899----------998---------------99-999---------------


Q ss_pred             HHHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf             89999988998875874103443132677762102357641010010034301110101346787788643698403321
Q gi|254780226|r  162 LQSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIIS  241 (367)
Q Consensus       162 ~~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~is  241 (367)
                               ..+..                     ......-|+++|+||+|.... .....+..++++.+.+..++-+|
T Consensus       110 ---------~~i~~---------------------~~~~~~~~iilVGNK~DL~~~-r~V~~~e~~~~a~~~~~~~~E~S  158 (180)
T cd04127         110 ---------SQLQT---------------------HAYCENPDIVLCGNKADLEDQ-RQVSEEQAKALADKYGIPYFETS  158 (180)
T ss_pred             ---------HHHHH---------------------HCCCCCCCEEEECCCCCHHHC-CCCCHHHHHHHHHHCCCEEEEEC
T ss_conf             ---------99998---------------------546689857875032366750-88899999999998499799980


Q ss_pred             CHHHH
Q ss_conf             00246
Q gi|254780226|r  242 AAIEA  246 (367)
Q Consensus       242 a~~E~  246 (367)
                      |+.-.
T Consensus       159 Ak~g~  163 (180)
T cd04127         159 AATGT  163 (180)
T ss_pred             CCCCC
T ss_conf             37791


No 138
>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2.  Rab8/Sec4/Ypt2 are known or suspected to be involved in post-Golgi transport to the plasma membrane. It is likely that these Rabs have functions that are specific to the mammalian lineage and have no orthologs in plants. Rab8 modulates polarized membrane transport through reorganization of actin and microtubules, induces the formation of new surface extensions, and has an important role in directed membrane transport to cell surfaces. The Ypt2 gene of the fission yeast Schizosaccharomyces pombe encodes a member of the Ypt/Rab family of small GTP-binding proteins, related in sequence to Sec4p of Saccharomyces cerevisiae but closer to mammalian Rab8.  GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state.  Rabs are further regulated by guanine nucleotide dissociation inhi
Probab=98.11  E-value=0.00016  Score=50.31  Aligned_cols=151  Identities=21%  Similarity=0.226  Sum_probs=85.5

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      .+||-++|-++||||+|.+......  =..+|. +||..+.-.-.+.          .++.   ..++++.|.||-=.  
T Consensus         3 ~~KivlvGd~~vGKTsli~r~~~~~--f~~~~~-~Tig~~~~~k~v~----------~~~~---~i~l~iwDt~G~e~--   64 (167)
T cd01867           3 LFKLLLIGDSGVGKSCLLLRFSEDS--FNPSFI-STIGIDFKIRTIE----------LDGK---KIKLQIWDTAGQER--   64 (167)
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHCC--CCCCCC-CCCCEEEEEEEEE----------ECCE---EEEEEEEECCCCCC--
T ss_conf             8999999999978899999996099--999868-9864688999999----------9999---99999998999700--


Q ss_pred             CCCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHH
Q ss_conf             22466328999987303747885012345421134577673215788988887643322245777778752032046777
Q gi|254780226|r   82 SKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVL  161 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~  161 (367)
                        =+.+   --..+|+||++|.|.|...-..             ++-            ++ .|-+              
T Consensus        65 --~~~~---~~~y~~~a~~~ilvfdit~~~S-------------f~~------------~~-~w~~--------------   99 (167)
T cd01867          65 --FRTI---TTAYYRGAMGIILVYDITDEKS-------------FEN------------IR-NWMR--------------   99 (167)
T ss_pred             --HHHH---HHHHHHHCCEEEEECCCCCHHH-------------HHH------------HH-HHHH--------------
T ss_conf             --1166---7998565058899556898799-------------999------------99-9999--------------


Q ss_pred             HHHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf             89999988998875874103443132677762102357641010010034301110101346787788643698403321
Q gi|254780226|r  162 LQSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIIS  241 (367)
Q Consensus       162 ~~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~is  241 (367)
                            .    +.+      .   -+             ..-|+++|+||.|.... .....+...+++.+.+..++.+|
T Consensus       100 ------~----i~~------~---~~-------------~~~~~ilVgNK~Dl~~~-r~v~~~e~~~~a~~~~~~~~e~S  146 (167)
T cd01867         100 ------N----IEE------H---AS-------------EDVERMLVGNKCDMEEK-RVVSKEEGEALADEYGIKFLETS  146 (167)
T ss_pred             ------H----HHH------H---CC-------------CCCCEEEECCCCCCHHC-CCCCHHHHHHHHHHHCCEEEEEC
T ss_conf             ------9----998------6---69-------------99705764212450230-77999999999998099699982


Q ss_pred             CHHHHHH
Q ss_conf             0024665
Q gi|254780226|r  242 AAIEAEI  248 (367)
Q Consensus       242 a~~E~ei  248 (367)
                      |+...-+
T Consensus       147 Aktg~nI  153 (167)
T cd01867         147 AKANINV  153 (167)
T ss_pred             CCCCCCH
T ss_conf             2579078


No 139
>cd04140 ARHI_like ARHI subfamily.  ARHI (A Ras homolog member I) is a member of the Ras family with several unique structural and functional properties.  ARHI is expressed in normal human ovarian and breast tissue, but its expression is decreased or eliminated in breast and ovarian cancer.  ARHI contains an N-terminal extension of 34 residues (human) that is required to retain its tumor suppressive activity.   Unlike most other Ras family members, ARHI is maintained in the constitutively active (GTP-bound) state in resting cells and has modest GTPase activity.  ARHI inhibits STAT3 (signal transducers and activators of transcription 3), a latent transcription factor whose abnormal activation plays a critical role in oncogenesis.  Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid.  Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.  Due to
Probab=98.11  E-value=7.5e-05  Score=52.48  Aligned_cols=149  Identities=19%  Similarity=0.273  Sum_probs=84.8

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEE-EEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337-99768555877764218650233579998512235432
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSG-EVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g-~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      .||-++|-++||||+|....+.. . =..+|. +||+...- .+.+            ++ +  ..++++.|.||--   
T Consensus         2 ~KivllGd~~VGKTsli~r~~~~-~-F~~~y~-~Ti~~~~~~~i~~------------~~-~--~~~l~iwDtaG~e---   60 (165)
T cd04140           2 YRVVVFGAGGVGKSSLVLRFVKG-T-FRESYI-PTIEDTYRQVISC------------SK-N--ICTLQITDTTGSH---   60 (165)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHC-C-CCCCCC-CCCCCEEEEEEEE------------CC-E--EEEEEEEECCCCC---
T ss_conf             09999899997699999999649-6-999868-8454205589999------------99-9--9999999899984---


Q ss_pred             CCCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHH
Q ss_conf             22466328999987303747885012345421134577673215788988887643322245777778752032046777
Q gi|254780226|r   82 SKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVL  161 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~  161 (367)
                       +-+.+-..   .+|+||++|.|-|...-+.          .               +.++.-|+.+.+           
T Consensus        61 -~~~~l~~~---~~~~a~~~ilvydit~~~S----------f---------------~~~~~~~~~i~~-----------  100 (165)
T cd04140          61 -QFPAMQRL---SISKGHAFILVYSVTSKQS----------L---------------EELKPIYELICE-----------  100 (165)
T ss_pred             -CCCCCHHH---HHCCCCEEEEEECCCCHHH----------H---------------HHHHHHHHHHHH-----------
T ss_conf             -65423244---5068857999813898789----------9---------------999999999999-----------


Q ss_pred             HHHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf             89999988998875874103443132677762102357641010010034301110101346787788643698403321
Q gi|254780226|r  162 LQSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIIS  241 (367)
Q Consensus       162 ~~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~is  241 (367)
                                                      +++.. ...-|+++|+||.|....+ ....++.++++.+.+..++-+|
T Consensus       101 --------------------------------~~~~~-~~~~piilVgNK~Dl~~~r-~V~~~e~~~~a~~~~~~~~E~S  146 (165)
T cd04140         101 --------------------------------IKGNN-IEKIPIMLVGNKCDESHKR-EVSSNEGAACATEWNCAFMETS  146 (165)
T ss_pred             --------------------------------HHHCC-CCCCCEEEEEECCCCCCCC-CCCHHHHHHHHHHCCCEEEEEC
T ss_conf             --------------------------------96158-8888789986424640027-8899999999998698899974


Q ss_pred             CHHHH
Q ss_conf             00246
Q gi|254780226|r  242 AAIEA  246 (367)
Q Consensus       242 a~~E~  246 (367)
                      |+.-.
T Consensus       147 Ak~~~  151 (165)
T cd04140         147 AKTNH  151 (165)
T ss_pred             CCCCC
T ss_conf             47794


No 140
>cd04117 Rab15 Rab15 subfamily.  Rab15 colocalizes with the transferrin receptor in early endosome compartments, but not with late endosomal markers. It codistributes with Rab4 and Rab5 on early/sorting endosomes, and with Rab11 on pericentriolar recycling endosomes. It is believed to function as an inhibitory GTPase that regulates distinct steps in early endocytic trafficking.  GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state.  Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.  Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.  Due to
Probab=98.11  E-value=9.1e-05  Score=51.90  Aligned_cols=150  Identities=18%  Similarity=0.244  Sum_probs=87.1

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337997685558777642186502335799985122354322
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      +||=++|-++||||+|.+..+.. . -..+|. +||......-.+.          .++   ...++++.|.||--    
T Consensus         1 ~KIvllGd~~VGKTsli~r~~~~-~-f~~~~~-~Tig~~~~~k~v~----------~~~---~~i~l~iwDtaGqe----   60 (161)
T cd04117           1 FRLLLIGDSGVGKTCLLCRFTDN-E-FHSSHI-STIGVDFKMKTIE----------VDG---IKVRIQIWDTAGQE----   60 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHCC-C-CCCCCC-CCCEEEEEEEEEE----------ECC---EEEEEEEEECCCCC----
T ss_conf             98999994998589999999429-9-899878-8720898899999----------999---99999999799960----


Q ss_pred             CCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH
Q ss_conf             24663289999873037478850123454211345776732157889888876433222457777787520320467778
Q gi|254780226|r   83 KGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLL  162 (367)
Q Consensus        83 ~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~  162 (367)
                      +-+.+-.   ...|+||++|.|-|......             +            +.+. .|-                
T Consensus        61 ~~~~~~~---~y~r~a~~~ilvyDvt~~~S-------------f------------~~l~-~w~----------------   95 (161)
T cd04117          61 RYQTITK---QYYRRAQGIFLVYDISSERS-------------Y------------QHIM-KWV----------------   95 (161)
T ss_pred             CCCCCHH---HHHHHHCEEEEECCCCCHHH-------------H------------HHHH-HHH----------------
T ss_conf             2363558---88764168899614898899-------------9------------9999-999----------------


Q ss_pred             HHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             99999889988758741034431326777621023576410100100343011101013467877886436984033210
Q gi|254780226|r  163 QSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIISA  242 (367)
Q Consensus       163 ~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~isa  242 (367)
                              ..+.+          ...            ..-|+++|+||.|..... ....++..+++.+.+..++.+||
T Consensus        96 --------~~i~~----------~~~------------~~~~~ilVgNK~Dl~~~r-~v~~~~~~~~a~~~~~~~~etSA  144 (161)
T cd04117          96 --------SDVDE----------YAP------------EGVQKILIGNKADEEQKR-QVGDEQGNKLAKEYGMDFFETSA  144 (161)
T ss_pred             --------HHHHH----------HCC------------CCCEEEEEEECCCHHHCC-CCCHHHHHHHHHHCCCEEEEECC
T ss_conf             --------99998----------789------------986499987327878627-79999999999986997999677


Q ss_pred             HHHHHH
Q ss_conf             024665
Q gi|254780226|r  243 AIEAEI  248 (367)
Q Consensus       243 ~~E~ei  248 (367)
                      +....+
T Consensus       145 k~~~nV  150 (161)
T cd04117         145 CTNSNI  150 (161)
T ss_pred             CCCCCH
T ss_conf             898298


No 141
>smart00173 RAS Ras subfamily of RAS small GTPases. Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors  to protein kinase cascades
Probab=98.10  E-value=5.5e-05  Score=53.38  Aligned_cols=148  Identities=19%  Similarity=0.242  Sum_probs=83.3

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337997685558777642186502335799985122354322
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      +||-++|-|+||||+|.+..+.. . =..+|. +|+    +......      . ..+++   ...+++.|.||--.   
T Consensus         1 fKiv~vGd~~vGKTsli~r~~~~-~-f~~~y~-~Ti----~~~~~k~------i-~~~~~---~~~l~iwDt~G~e~---   60 (164)
T smart00173        1 YKLVVLGSGGVGKSALTIQFVQG-H-FVDDYD-PTI----EDSYRKQ------I-EIDGE---VCLLDILDTAGQEE---   60 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHC-C-CCCCCC-CCE----EEEEEEE------E-EECCE---EEEEEEEECCCCCC---
T ss_conf             98999999997899999999729-7-998778-813----6789999------9-99999---99999998999710---


Q ss_pred             CCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH
Q ss_conf             24663289999873037478850123454211345776732157889888876433222457777787520320467778
Q gi|254780226|r   83 KGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLL  162 (367)
Q Consensus        83 ~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~  162 (367)
                       =+.+-+   ..+|+||++|.|-|...-..             ++            .+. .|                 
T Consensus        61 -~~~~~~---~~~~~a~~~ilvydi~~~~S-------------f~------------~~~-~~-----------------   93 (164)
T smart00173       61 -FSAMRD---QYMRTGEGFLLVYSITDRQS-------------FE------------EIK-KF-----------------   93 (164)
T ss_pred             -HHHHHH---HHCCCCCEEEEEEECCCHHH-------------HH------------HHH-HH-----------------
T ss_conf             -356777---75379877999830798899-------------99------------999-99-----------------


Q ss_pred             HHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             99999889988758741034431326777621023576410100100343011101013467877886436984033210
Q gi|254780226|r  163 QSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIISA  242 (367)
Q Consensus       163 ~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~isa  242 (367)
                                             |. +... ...   ...-|+++|+||.|.... .....++..+++.+.+..++-+||
T Consensus        94 -----------------------~~-~i~~-~~~---~~~~piilvgnK~DL~~~-r~V~~~e~~~~a~~~~~~~~E~SA  144 (164)
T smart00173       94 -----------------------RE-QILR-VKD---RDDVPIVLVGNKCDLESE-RVVSTEEGKELARQWGCPFLETSA  144 (164)
T ss_pred             -----------------------HH-HHHH-HCC---CCCCCEEEEEECCCCHHC-CCCCHHHHHHHHHHCCCEEEEECC
T ss_conf             -----------------------99-9998-618---888866877753463011-789999999999983998999858


Q ss_pred             HHHH
Q ss_conf             0246
Q gi|254780226|r  243 AIEA  246 (367)
Q Consensus       243 ~~E~  246 (367)
                      +...
T Consensus       145 k~g~  148 (164)
T smart00173      145 KERV  148 (164)
T ss_pred             CCCC
T ss_conf             9881


No 142
>cd01866 Rab2 Rab2 subfamily.  Rab2 is localized on cis-Golgi membranes and interacts with Golgi matrix proteins. Rab2 is also implicated in the maturation of vesicular tubular clusters (VTCs), which are microtubule-associated intermediates in transport between the ER and Golgi apparatus. In plants, Rab2 regulates vesicle trafficking between the ER and the Golgi bodies and is important to pollen tube growth.  GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state.  Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.  Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key featur
Probab=98.09  E-value=0.00012  Score=51.03  Aligned_cols=151  Identities=20%  Similarity=0.227  Sum_probs=86.5

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      .+||-++|-++||||+|.+..+.. .- ..+|+ +||......-.+          ..++   ...++++.|.||--.- 
T Consensus         4 ~~KivlvGd~~VGKTsli~r~~~~-~f-~~~~~-~Tig~~~~~k~i----------~~~~---~~~~l~iwDt~G~e~~-   66 (168)
T cd01866           4 LFKYIIIGDTGVGKSCLLLQFTDK-RF-QPVHD-LTIGVEFGARMI----------TIDG---KQIKLQIWDTAGQESF-   66 (168)
T ss_pred             EEEEEEECCCCCCHHHHHHHHHCC-CC-CCCCC-CCCEEEEEEEEE----------EECC---EEEEEEEEECCCCCCC-
T ss_conf             889999998997889999999109-89-99878-985078899999----------9999---9999999979997334-


Q ss_pred             CCCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHH
Q ss_conf             22466328999987303747885012345421134577673215788988887643322245777778752032046777
Q gi|254780226|r   82 SKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVL  161 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~  161 (367)
                         +.+   .-...|++|++|.|-|...-+.             +            +.+. .|                
T Consensus        67 ---~~l---~~~~~~~a~~~ilvydit~~~S-------------f------------~~l~-~w----------------   98 (168)
T cd01866          67 ---RSI---TRSYYRGAAGALLVYDITRRET-------------F------------NHLT-SW----------------   98 (168)
T ss_pred             ---CCC---HHHHHHHHCEEEEECCCCCHHH-------------H------------HHHH-HH----------------
T ss_conf             ---625---5888664368999344587799-------------9------------9999-99----------------


Q ss_pred             HHHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf             89999988998875874103443132677762102357641010010034301110101346787788643698403321
Q gi|254780226|r  162 LQSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIIS  241 (367)
Q Consensus       162 ~~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~is  241 (367)
                                 +++   ++..    .        .    ..-|+++|+||+|.... .....+..++++.+.+..++-+|
T Consensus        99 -----------~~~---i~~~----~--------~----~~~~iiLVGNK~DL~~~-r~V~~~e~~~~a~~~~~~~~E~S  147 (168)
T cd01866          99 -----------LED---ARQH----S--------N----SNMTIMLIGNKCDLESR-REVSYEEGEAFAKEHGLIFMETS  147 (168)
T ss_pred             -----------HHH---HHHH----C--------C----CCCEEEEEEECCCHHHC-CCCCHHHHHHHHHHCCCEEEEEC
T ss_conf             -----------999---9986----7--------9----99659984342354540-77899999999998699999976


Q ss_pred             CHHHHHH
Q ss_conf             0024665
Q gi|254780226|r  242 AAIEAEI  248 (367)
Q Consensus       242 a~~E~ei  248 (367)
                      |+....+
T Consensus       148 Ak~~~nV  154 (168)
T cd01866         148 AKTASNV  154 (168)
T ss_pred             CCCCCCH
T ss_conf             7888088


No 143
>cd04110 Rab35 Rab35 subfamily.  Rab35 is one of several Rab proteins to be found to participate in the regulation of osteoclast cells in rats. In addition, Rab35 has been identified as a protein that interacts with nucleophosmin-anaplastic lymphoma kinase (NPM-ALK) in human cells.  Overexpression of NPM-ALK is a key oncogenic event in some anaplastic large-cell lymphomas; since Rab35 interacts with N|PM-ALK, it may provide a target for cancer treatments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state.  Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.  Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is 
Probab=98.07  E-value=0.00015  Score=50.43  Aligned_cols=148  Identities=21%  Similarity=0.248  Sum_probs=87.4

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEE--EEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCC
Q ss_conf             824867528887888999987404898736668674488337--997685558777642186502335799985122354
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSG--EVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVR   79 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g--~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~   79 (367)
                      .+||-++|-++||||+|+...+.. . =..+|. +||..+..  .+.+            +++   ..++++.|.||-- 
T Consensus         6 ~~KIvlvGd~~VGKTSli~r~~~~-~-F~~~~~-~Tig~d~~~k~v~i------------~~~---~v~l~iwDtaGqe-   66 (199)
T cd04110           6 LFKLLIIGDSGVGKSSLLLRFADN-T-FSGSYI-TTIGVDFKIRTVEI------------NGE---RVKLQIWDTAGQE-   66 (199)
T ss_pred             EEEEEEECCCCCCHHHHHHHHHCC-C-CCCCCC-CCCCEEEEEEEEEE------------CCE---EEEEEEEECCCCC-
T ss_conf             779999997998889999999509-9-999868-97555878999999------------999---9999999899981-


Q ss_pred             CCCCCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHH
Q ss_conf             32224663289999873037478850123454211345776732157889888876433222457777787520320467
Q gi|254780226|r   80 GASKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEI  159 (367)
Q Consensus        80 gA~~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~  159 (367)
                         +-+.+...|   .|+||++|.|-|...-+.             +            +.++ .|-             
T Consensus        67 ---~~~~l~~~~---~~~a~~~ilvyDit~~~S-------------f------------~~l~-~w~-------------  101 (199)
T cd04110          67 ---RFRTITSTY---YRGTHGVIVVYDVTNGES-------------F------------VNVK-RWL-------------  101 (199)
T ss_pred             ---CCCCCHHHH---HHCCCCCEEEEECCCHHH-------------H------------HHHH-HHH-------------
T ss_conf             ---235352666---424654238971798899-------------9------------9999-999-------------


Q ss_pred             HHHHHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCC
Q ss_conf             77899999889988758741034431326777621023576410100100343011101013467877886436984033
Q gi|254780226|r  160 VLLQSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMII  239 (367)
Q Consensus       160 ~~~~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~  239 (367)
                                 ..+..                     .  ....|+++|+||.|....+ ....++..+++.+.+..++.
T Consensus       102 -----------~~i~~---------------------~--~~~~~~ilVGNK~Dl~~~r-~v~~~e~~~~a~~~~~~f~E  146 (199)
T cd04110         102 -----------QEIEQ---------------------N--CDDVCKVLVGNKNDDPERK-VVETEDAYKFAGQMGISLFE  146 (199)
T ss_pred             -----------HHHHH---------------------H--CCCCCEEEEEECCCHHHHC-CCCHHHHHHHHHHCCCEEEE
T ss_conf             -----------99997---------------------5--9987579998855447546-99999999999986997999


Q ss_pred             CCCHHHHHH
Q ss_conf             210024665
Q gi|254780226|r  240 ISAAIEAEI  248 (367)
Q Consensus       240 isa~~E~ei  248 (367)
                      +||+...-+
T Consensus       147 ~SAktg~nV  155 (199)
T cd04110         147 TSAKENINV  155 (199)
T ss_pred             EECCCCCCH
T ss_conf             868999298


No 144
>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily.  Arl9 (Arf-like 9) was first identified as part of the Human Cancer Genome Project.  It maps to chromosome 4q12 and is sometimes referred to as Arfrp2 (Arf-related protein 2).  This is a novel subfamily identified in human cancers that is uncharacterized to date.
Probab=98.07  E-value=2.4e-05  Score=55.77  Aligned_cols=79  Identities=18%  Similarity=0.299  Sum_probs=51.0

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      ||=++|+.|+|||||++.+.. ... ..++ -.|+-.|+-.+...                 ..++.+.|++|    ...
T Consensus         1 kIlilGLd~aGKTTil~~l~~-~~~-~~~~-~PT~Gf~~~~i~~~-----------------~~~l~~wDlgG----q~~   56 (164)
T cd04162           1 QILVLGLDGAGKTSLLHSLSS-ERS-LESV-VPTTGFNSVAIPTQ-----------------DAIMELLEIGG----SQN   56 (164)
T ss_pred             CEEEECCCCCCHHHHHHHHHC-CCC-CCCC-CCCCCCCEEEEEEC-----------------CEEEEEEECCC----HHH
T ss_conf             999996799989999999816-998-7653-56327746999989-----------------99999985375----288


Q ss_pred             CCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             46632899998730374788501234
Q gi|254780226|r   84 GEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        84 G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      -+.+...+   .++||+||.|||+++
T Consensus        57 ~R~~W~~Y---~~~~~gIIfVVDssD   79 (164)
T cd04162          57 LRKYWKRY---LSGSQGLIFVVDSAD   79 (164)
T ss_pred             HHHHHHHH---HHCCCEEEEEEECCC
T ss_conf             86569987---117758999995688


No 145
>cd04148 RGK RGK subfamily.  The RGK (Rem, Rem2, Rad, Gem/Kir) subfamily of Ras GTPases are expressed in a tissue-specific manner and are dynamically regulated by transcriptional and posttranscriptional mechanisms in response to environmental cues.   RGK proteins bind to the beta subunit of L-type calcium channels, causing functional down-regulation of these voltage-dependent calcium channels, and either termination of calcium-dependent secretion or modulation of electrical conduction and contractile function.  Inhibition of L-type calcium channels by Rem2 may provide a mechanism for modulating calcium-triggered exocytosis in hormone-secreting cells, and has been proposed to influence the secretion of insulin in pancreatic beta cells.  RGK proteins also interact with and inhibit the Rho/Rho kinase pathway to modulate remodeling of the cytoskeleton.  Two characteristics of RGK proteins cited in the literature are N-terminal and C-terminal extensions beyond the GTPase domain typical of Ra
Probab=98.07  E-value=0.00014  Score=50.62  Aligned_cols=149  Identities=18%  Similarity=0.228  Sum_probs=85.0

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEE--EECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCC
Q ss_conf             248675288878889999874048987366686744883379--976855587776421865023357999851223543
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGE--VAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRG   80 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~--~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~g   80 (367)
                      .||-++|-+.||||++.+..+.. .-....|+ +|+....+.  +.+.            +   .++++++.|++|--  
T Consensus         1 yKVvllGd~gVGKTSLi~rf~~~-~f~~~~y~-~t~~~d~~~k~v~vd------------~---~~~~l~i~Dt~g~e--   61 (221)
T cd04148           1 YRVVMLGSPGVGKSSLASQFTSG-EYDDHAYD-ASGDDDTYERTVSVD------------G---EESTLVVIDHWEQE--   61 (221)
T ss_pred             CEEEEECCCCCHHHHHHHHHHHC-CCCCCCCC-CCCCEEEEEEEEEEC------------C---EEEEEEEEECCCCH--
T ss_conf             97999998997099999999819-86986678-744248899999999------------9---99899999898731--


Q ss_pred             CCCCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHH
Q ss_conf             22246632899998730374788501234542113457767321578898888764332224577777875203204677
Q gi|254780226|r   81 ASKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIV  160 (367)
Q Consensus        81 A~~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~  160 (367)
                         +-   .....-..++|++|.|-|...-+       +      ++            .++                  
T Consensus        62 ---~~---~~~~~~~~~ada~ilVYdvtdr~-------S------F~------------~~~------------------   92 (221)
T cd04148          62 ---MW---TEDSCMQYQGDAFVVVYSVTDRS-------S------FE------------RAS------------------   92 (221)
T ss_pred             ---HH---HHHHHHHHCCCEEEEEEECCCHH-------H------HH------------HHH------------------
T ss_conf             ---26---66656530686899999646677-------8------88------------899------------------


Q ss_pred             HHHHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCC
Q ss_conf             78999998899887587410344313267776210235764101001003430111010134678778864369840332
Q gi|254780226|r  161 LLQSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIII  240 (367)
Q Consensus       161 ~~~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~i  240 (367)
                             .....+....                  .   ....|+++|+||+|..-.. ....++-+++|.+.+..++-+
T Consensus        93 -------~~~~~l~~~~------------------~---~~~~piILVGNK~DL~~~R-~Vs~eEg~~~A~~~~~~F~Et  143 (221)
T cd04148          93 -------ELRIQLRRNR------------------Q---LEDRPIILVGNKSDLARSR-EVSVQEGRACAVVFDCKFIET  143 (221)
T ss_pred             -------HHHHHHHHHC------------------C---CCCCEEEEEEECCCHHHHC-CCCHHHHHHHHHHCCCEEEEC
T ss_conf             -------9999999864------------------8---9995199985356668638-999999999999859989994


Q ss_pred             CCHHHHHH
Q ss_conf             10024665
Q gi|254780226|r  241 SAAIEAEI  248 (367)
Q Consensus       241 sa~~E~ei  248 (367)
                      ||+....+
T Consensus       144 SAk~~~NV  151 (221)
T cd04148         144 SAGLQHNV  151 (221)
T ss_pred             CCCCCCCH
T ss_conf             57999498


No 146
>cd04122 Rab14 Rab14 subfamily.  Rab14 GTPases are localized to biosynthetic compartments, including the rough ER, the Golgi complex, and the trans-Golgi network, and to endosomal compartments, including early endosomal vacuoles and associated vesicles.  Rab14 is believed to function in both the biosynthetic and recycling pathways between the Golgi and endosomal compartments.  Rab14 has also been identified on GLUT4 vesicles, and has been suggested to help regulate GLUT4 translocation.  In addition, Rab14 is believed to play a role in the regulation of phagocytosis.  GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state.  Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.  Most Rab GT
Probab=98.07  E-value=7.2e-05  Score=52.59  Aligned_cols=149  Identities=21%  Similarity=0.303  Sum_probs=86.9

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEE--EECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCC
Q ss_conf             8248675288878889999874048987366686744883379--97685558777642186502335799985122354
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGE--VAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVR   79 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~--~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~   79 (367)
                      .+||-++|-++||||+|++..+..  .=..+|| .||......  +.+            +++   ..++++.|.||-= 
T Consensus         2 ~~KivlvGd~~VGKTsli~r~~~~--~f~~~~~-~Tig~~~~~k~i~~------------~~~---~~~l~iwDtaG~e-   62 (166)
T cd04122           2 IFKYIIIGDMGVGKSCLLHQFTEK--KFMADCP-HTIGVEFGTRIIEV------------NGQ---KIKLQIWDTAGQE-   62 (166)
T ss_pred             EEEEEEECCCCCCHHHHHHHHHCC--CCCCCCC-CCCCEEEEEEEEEE------------CCE---EEEEEEEECCCCC-
T ss_conf             499999999995799999999129--8899999-97446889999999------------999---9999999899985-


Q ss_pred             CCCCCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHH
Q ss_conf             32224663289999873037478850123454211345776732157889888876433222457777787520320467
Q gi|254780226|r   80 GASKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEI  159 (367)
Q Consensus        80 gA~~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~  159 (367)
                         +-+.+-.   ...|+||++|.|.|...-+       +      +            +.++ .|              
T Consensus        63 ---~~~~~~~---~~~~~a~~~ilvydvt~~~-------S------f------------~~l~-~w--------------   96 (166)
T cd04122          63 ---RFRAVTR---SYYRGAAGALMVYDITRRS-------T------Y------------NHLS-SW--------------   96 (166)
T ss_pred             ---CCCCCCH---HHEECCCEEEEEECCCCHH-------H------H------------HHHH-HH--------------
T ss_conf             ---4442521---1143154659972587476-------7------9------------9999-99--------------


Q ss_pred             HHHHHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCC
Q ss_conf             77899999889988758741034431326777621023576410100100343011101013467877886436984033
Q gi|254780226|r  160 VLLQSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMII  239 (367)
Q Consensus       160 ~~~~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~  239 (367)
                                   +++   ++..           ..     ...|+++|+||+|.+... ....++..+++.+.+..++-
T Consensus        97 -------------~~~---~~~~-----------~~-----~~~~iilVGNK~DL~~~r-~V~~~e~~~~a~~~~~~~~E  143 (166)
T cd04122          97 -------------LTD---ARNL-----------TN-----PNTVIFLIGNKADLEAQR-DVTYEEAKQFADENGLLFLE  143 (166)
T ss_pred             -------------HHH---HHHH-----------CC-----CCCEEEECCCCCCHHHCC-CCCHHHHHHHHHHCCCEEEE
T ss_conf             -------------999---9985-----------69-----997587034015744438-99999999999986998999


Q ss_pred             CCCHHHHHH
Q ss_conf             210024665
Q gi|254780226|r  240 ISAAIEAEI  248 (367)
Q Consensus       240 isa~~E~ei  248 (367)
                      +||+....+
T Consensus       144 ~SAk~g~nV  152 (166)
T cd04122         144 CSAKTGENV  152 (166)
T ss_pred             ECCCCCCCH
T ss_conf             865878088


No 147
>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily.  Rheb was initially identified in rat brain, where its expression is elevated by seizures or by long-term potentiation.  It is expressed ubiquitously, with elevated levels in muscle and brain.  Rheb functions as an important mediator between the tuberous sclerosis complex proteins, TSC1 and TSC2, and the mammalian target of rapamycin (TOR) kinase to stimulate cell growth.  TOR kinase regulates cell growth by controlling nutrient availability, growth factors, and the energy status of the cell.  TSC1 and TSC2 form a dimeric complex that has tumor suppressor activity, and TSC2 is a GTPase activating protein (GAP) for Rheb.  The TSC1/TSC2 complex inhibits the activation of TOR kinase through Rheb.  Rheb has also been shown to induce the formation of large cytoplasmic vacuoles in a process that is dependent on the GTPase cycle of Rheb, but independent of the TOR kinase, suggesting Rheb plays a role in endocytic trafficking that le
Probab=98.07  E-value=0.00024  Score=49.01  Aligned_cols=148  Identities=21%  Similarity=0.240  Sum_probs=84.4

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEE-EEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             4867528887888999987404898736668674488337-997685558777642186502335799985122354322
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSG-EVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g-~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      ||-++|-++||||+|.+..+...  =..+|. +|+..+.- .+.            .++.   ...+++.|.||--.   
T Consensus         3 KIvlvGd~~VGKTsli~r~~~~~--f~~~y~-~Ti~~~~~k~i~------------~~~~---~~~l~iwDtaG~e~---   61 (180)
T cd04137           3 KIAVLGSRSVGKSSLTVQFVEGH--FVESYY-PTIENTFSKIIR------------YKGQ---DYHLEIVDTAGQDE---   61 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC--CCCCCC-CCCCCCCCEEEE------------ECCE---EEEEEEEECCCCCC---
T ss_conf             89999989988999999997097--899858-812441137999------------9999---99999998998701---


Q ss_pred             CCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH
Q ss_conf             24663289999873037478850123454211345776732157889888876433222457777787520320467778
Q gi|254780226|r   83 KGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLL  162 (367)
Q Consensus        83 ~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~  162 (367)
                       -+.+-.   ...|++|++|.|-|...-+.             +            +.++.-|++..             
T Consensus        62 -~~~~~~---~~~~~a~~~ilvydvt~~~S-------------f------------~~~~~~~~~~~-------------   99 (180)
T cd04137          62 -YSILPQ---KYSIGIHGYILVYSVTSRKS-------------F------------EVVKVIYDKIL-------------   99 (180)
T ss_pred             -CCHHHH---HHHHHCCEEEEEEECCCHHH-------------H------------HHHHHHHHHHH-------------
T ss_conf             -006679---99863557899974388788-------------9------------99999999999-------------


Q ss_pred             HHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             99999889988758741034431326777621023576410100100343011101013467877886436984033210
Q gi|254780226|r  163 QSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIISA  242 (367)
Q Consensus       163 ~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~isa  242 (367)
                                                   .....    ..-|+++|+||+|..... ....++.++++.+.+..++-+||
T Consensus       100 -----------------------------~~~~~----~~~piilVgNK~DL~~~r-~V~~~e~~~~a~~~~~~f~EtSA  145 (180)
T cd04137         100 -----------------------------DMLGK----ESVPIVLVGNKSDLHTQR-QVSTEEGKELAESWGAAFLESSA  145 (180)
T ss_pred             -----------------------------HHHCC----CCCCEEEEEECCCCHHHC-CCCHHHHHHHHHHCCCEEEEECC
T ss_conf             -----------------------------97588----888679776534624407-88999999999983998999776


Q ss_pred             HHHHHH
Q ss_conf             024665
Q gi|254780226|r  243 AIEAEI  248 (367)
Q Consensus       243 ~~E~ei  248 (367)
                      +....+
T Consensus       146 k~g~nV  151 (180)
T cd04137         146 RENENV  151 (180)
T ss_pred             CCCCCH
T ss_conf             889198


No 148
>PRK13796 GTP-binding protein YqeH; Provisional
Probab=98.06  E-value=4.6e-06  Score=60.67  Aligned_cols=35  Identities=31%  Similarity=0.575  Sum_probs=19.9

Q ss_pred             EEEEECCCCCHHHHHHHHHCC-----CCCCCCCCCCCCCC
Q ss_conf             867528887888999987404-----89873666867448
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRT-----ASAQAANYPFCTIE   39 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~-----~~~~~~~ypFtTi~   39 (367)
                      +=+||..|||||||||++-..     ...-++.||=||++
T Consensus       165 vyvVG~tNvGKSTLiN~ll~~~~~~~~~iT~S~~PGTTL~  204 (367)
T PRK13796        165 VYVVGVTNVGKSTLINRIIKEITGEKDVITTSRFPGTTLD  204 (367)
T ss_pred             EEEEECCCCCHHHHHHHHHHHHCCCCCCEEECCCCCCCCC
T ss_conf             8999157575899999999871678773134489986303


No 149
>COG0218 Predicted GTPase [General function prediction only]
Probab=98.06  E-value=7e-06  Score=59.40  Aligned_cols=54  Identities=37%  Similarity=0.373  Sum_probs=40.5

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCC-CCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCC
Q ss_conf             248675288878889999874048-98736668674488337997685558777642186502335799985122
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTA-SAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAG   76 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~-~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaG   76 (367)
                      ..|.++|-.|||||||.|++|+.. .|.+++.|=.|-.+|-=.+.-                    ++-+||+||
T Consensus        25 ~EIaF~GRSNVGKSSlIN~l~~~k~LArtSktPGrTq~iNff~~~~--------------------~~~lVDlPG   79 (200)
T COG0218          25 PEIAFAGRSNVGKSSLINALTNQKNLARTSKTPGRTQLINFFEVDD--------------------ELRLVDLPG   79 (200)
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCEEECCCCCCCCCEEEEEEECC--------------------CEEEEECCC
T ss_conf             6799981686668999999967863556579998542367998358--------------------579981799


No 150
>cd01855 YqeH YqeH.  YqeH is an essential GTP-binding protein. Depletion of YqeH induces an excess initiation of DNA replication, suggesting that it negatively controls initiation of chromosome replication. The YqeH subfamily is common in eukaryotes and sporadically present in bacteria with probable acquisition by plants from chloroplasts.  Proteins of the YqeH 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.
Probab=98.05  E-value=7.1e-06  Score=59.37  Aligned_cols=47  Identities=17%  Similarity=0.229  Sum_probs=23.6

Q ss_pred             HHCCCHHEECCCHHHHCCCHHHHHHHHHHHH-----H---CCCCCCCCCCHHHHHHH
Q ss_conf             4101001003430111010134678778864-----3---69840332100246655
Q gi|254780226|r  201 TAKPILYICNVSEHDCKKGNIYTEAVQRLAS-----Q---QNAEMIIISAAIEAEIS  249 (367)
Q Consensus       201 t~KP~iivaNk~e~~~~~~n~~~e~i~~l~~-----~---~~~~~i~isa~~E~ei~  249 (367)
                      ..||+++|+||.|.=..+.+.  ..++.|..     .   +-..++++||+...-+.
T Consensus        60 ~~~~v~lV~NK~DLLp~~~~~--~~~~~~~~~~~~~~~~~~~~~v~lvSa~~~~gi~  114 (190)
T cd01855          60 GNNPVILVGNKIDLLPKDKNL--VRIKNWLRAKAAAGLGLKPKDVILISAKKGWGVE  114 (190)
T ss_pred             CCCCEEEEEEHHHHCCCCCCH--HHHHHHHHHHHHHHCCCCCCCEEEEECCCCCCHH
T ss_conf             798689999815517887658--8889899999750159984317997665786989


No 151
>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=98.04  E-value=1.2e-05  Score=57.75  Aligned_cols=87  Identities=21%  Similarity=0.339  Sum_probs=49.5

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      ++.||++|-+++|||||-||+-|...-+-+.-|-...+...-....|+|            ++-  .+.+.|+||.-..+
T Consensus         1 pl~iaVtGesGaGKSSfINAlRGl~~~d~~aA~tGv~eTT~~~~~Y~~p------------~~p--nv~lwDlPG~Gt~~   66 (197)
T cd04104           1 PLNIAVTGESGAGKSSFINALRGVGHEEEGAAPTGVVETTMKRTPYPHP------------KFP--NVTLWDLPGIGSTA   66 (197)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCEECCCC------------CCC--CCEEECCCCCCCCC
T ss_conf             9179995589986899999986889887775888887467786204799------------999--87697289999876


Q ss_pred             CCCCCCHHHHHHH--HHCCCEEEEEEC
Q ss_conf             2246632899998--730374788501
Q gi|254780226|r   82 SKGEGLGNQFLAH--IREVDAIIHVLR  106 (367)
Q Consensus        82 ~~G~GlGN~FL~~--ir~aDalihVVd  106 (367)
                          ---++.|..  ..++|.+|.|.+
T Consensus        67 ----f~~~~Yl~~~~~~~yD~fiiiss   89 (197)
T cd04104          67 ----FPPDDYLEEMKFSEYDFFIIISS   89 (197)
T ss_pred             ----CCHHHHHHHCCCCCCCEEEEEEC
T ss_conf             ----59899998658554578999838


No 152
>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily.  Rab33B is ubiquitously expressed in mouse tissues and cells, where it is localized to the medial Golgi cisternae. It colocalizes with alpha-mannose II.  Together with the other cisternal Rabs, Rab6A and Rab6A', it is believed to regulate the Golgi response to stress and is likely a molecular target in stress-activated signaling pathways. Rab33A (previously known as S10) is expressed primarily in the brain and immune system cells.  In humans, it is located on the X chromosome at Xq26 and its expression is down-regulated in tuberculosis patients. Experimental evidence suggests that Rab33A is a novel CD8+ T cell factor that likely plays a role in tuberculosis disease processes.  GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state.  Rabs are further regulated by guanine 
Probab=98.04  E-value=0.00016  Score=50.27  Aligned_cols=144  Identities=24%  Similarity=0.278  Sum_probs=83.6

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEE--EECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCC
Q ss_conf             248675288878889999874048987366686744883379--976855587776421865023357999851223543
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGE--VAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRG   80 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~--~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~g   80 (367)
                      +||-++|-++||||+|....+.. . =..+|. .||..+...  +.+            +++   ..++++.|.||--.-
T Consensus         3 ~Kiv~lGd~~VGKTsli~r~~~~-~-F~~~~~-~Tig~d~~~k~i~v------------~~~---~v~l~iwDtaG~e~~   64 (170)
T cd04115           3 FKIIVIGDSNVGKTCLTYRFCAG-R-FPERTE-ATIGVDFRERTVEI------------DGE---RIKVQLWDTAGQERF   64 (170)
T ss_pred             EEEEEECCCCCCHHHHHHHHHCC-C-CCCCCC-CCEEEEEEEEEEEE------------CCE---EEEEEEEECCCCHHH
T ss_conf             99999997997799999999539-8-899878-86307878999999------------999---999999977885305


Q ss_pred             CCCCCCCHHHHH-HHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHH
Q ss_conf             222466328999-9873037478850123454211345776732157889888876433222457777787520320467
Q gi|254780226|r   81 ASKGEGLGNQFL-AHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEI  159 (367)
Q Consensus        81 A~~G~GlGN~FL-~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~  159 (367)
                      .       .... ...|+||++|.|-|...-+.             +            +.+ +.|              
T Consensus        65 ~-------~s~~~~~~~~a~~~ilvydvt~~~S-------------f------------~~~-~~w--------------   97 (170)
T cd04115          65 R-------KSMVQHYYRNVHAVVFVYDVTNMAS-------------F------------HSL-PSW--------------   97 (170)
T ss_pred             H-------HHHHHHHHCCCCEEEEEEECCCHHH-------------H------------HHH-HHH--------------
T ss_conf             6-------7778998457735799950474767-------------9------------999-999--------------


Q ss_pred             HHHHHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCC
Q ss_conf             77899999889988758741034431326777621023576410100100343011101013467877886436984033
Q gi|254780226|r  160 VLLQSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMII  239 (367)
Q Consensus       160 ~~~~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~  239 (367)
                                   +++   ++               ....-..-|+++|+||.|.... .....++.+++|.+.+..++-
T Consensus        98 -------------~~~---i~---------------~~~~~~~~p~vlVGNK~DL~~~-r~Vs~~e~~~~a~~~~~~~~E  145 (170)
T cd04115          98 -------------IEE---CE---------------QHSLPNEVPRILVGNKCDLREQ-IQVPTDLAQRFADAHSMPLFE  145 (170)
T ss_pred             -------------HHH---HH---------------HHCCCCCCCEEEEEECCCCHHH-CCCCHHHHHHHHHHCCCEEEE
T ss_conf             -------------999---99---------------8658889979999998213411-787999999999977999999


Q ss_pred             CCCH
Q ss_conf             2100
Q gi|254780226|r  240 ISAA  243 (367)
Q Consensus       240 isa~  243 (367)
                      +||+
T Consensus       146 ~SAK  149 (170)
T cd04115         146 TSAK  149 (170)
T ss_pred             ECCC
T ss_conf             8889


No 153
>cd01862 Rab7 Rab7 subfamily.  Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway.  The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion.  Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state.  Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.  Most Rab GTPases contain a lipid modification site at the C-
Probab=98.03  E-value=0.00026  Score=48.79  Aligned_cols=154  Identities=20%  Similarity=0.258  Sum_probs=83.6

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337997685558777642186502335799985122354322
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      +||-++|-++||||+|....+.. . =..+|. +||-.+.-.-.+          ..+++   ...+++.|.||--.   
T Consensus         1 ~KivlvGd~~VGKTsli~r~~~~-~-f~~~y~-~Tig~d~~~k~i----------~~~~~---~~~l~iwDtaG~e~---   61 (172)
T cd01862           1 LKVIILGDSGVGKTSLMNQYVNK-K-FSNQYK-ATIGADFLTKEV----------TVDDK---LVTLQIWDTAGQER---   61 (172)
T ss_pred             CEEEEECCCCCCHHHHHHHHHCC-C-CCCCCC-CCCCEEEEEEEE----------EECCE---EEEEEEEECCCCHH---
T ss_conf             98999998997899999999529-8-898757-755516999999----------99999---99999996999831---


Q ss_pred             CCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH
Q ss_conf             24663289999873037478850123454211345776732157889888876433222457777787520320467778
Q gi|254780226|r   83 KGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLL  162 (367)
Q Consensus        83 ~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~  162 (367)
                       =+.+...   ..|+||++|.|-|...-..          .+.               +. .|-.               
T Consensus        62 -~~~l~~~---~~~~a~~~ilvydvt~~~S----------f~~---------------l~-~w~~---------------   96 (172)
T cd01862          62 -FQSLGVA---FYRGADCCVLVYDVTNPKS----------FES---------------LD-SWRD---------------   96 (172)
T ss_pred             -HHHHHHH---HHHHCCEEEEEECCCCHHH----------HHH---------------HH-HHHH---------------
T ss_conf             -1068899---8652757999933899899----------999---------------99-9999---------------


Q ss_pred             HHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCC-CCCCCCC
Q ss_conf             999998899887587410344313267776210235764101001003430111010134678778864369-8403321
Q gi|254780226|r  163 QSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQN-AEMIIIS  241 (367)
Q Consensus       163 ~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~-~~~i~is  241 (367)
                       .+       +.... .+      +            ....|+++|+||.|.... ..+..++..+++.+.+ ..++-+|
T Consensus        97 -~~-------~~~~~-~~------~------------~~~~piilvgNK~Dl~~~-r~V~~~e~~~~a~~~~~~~~~E~S  148 (172)
T cd01862          97 -EF-------LIQAS-PS------D------------PENFPFVVLGNKIDLEEK-RQVSTKKAQQWCQSNGNIPYFETS  148 (172)
T ss_pred             -HH-------HHHCC-CC------C------------CCCCCEEEEEECCCHHHC-CCCCHHHHHHHHHHCCCCEEEEEC
T ss_conf             -99-------99727-67------7------------657638999633683641-899999999999976997899975


Q ss_pred             CHHHHHH
Q ss_conf             0024665
Q gi|254780226|r  242 AAIEAEI  248 (367)
Q Consensus       242 a~~E~ei  248 (367)
                      |+....+
T Consensus       149 Ak~~~nV  155 (172)
T cd01862         149 AKEAINV  155 (172)
T ss_pred             CCCCCCH
T ss_conf             2679198


No 154
>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily.  Rab32 and Rab38 are members of the Rab family of small GTPases.  Human Rab32 was first identified in platelets but it is expressed in a variety of cell types, where it functions as an A-kinase anchoring protein (AKAP). Rab38 has been shown to be melanocyte-specific.  GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state.  Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.  Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.
Probab=98.02  E-value=0.00011  Score=51.37  Aligned_cols=153  Identities=18%  Similarity=0.221  Sum_probs=83.9

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEE--EEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCC
Q ss_conf             24867528887888999987404898736668674488337--9976855587776421865023357999851223543
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSG--EVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRG   80 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g--~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~g   80 (367)
                      +||-++|-++||||+|.+..... . =..+|. +||.....  .+.++            ..  ..+++++.|+||-=.-
T Consensus         1 fKvvllGd~gVGKTsLi~rf~~~-~-F~~~y~-~Tig~df~~k~i~~~------------~~--~~v~l~iwDtaGqe~~   63 (201)
T cd04107           1 LKVLVIGDLGVGKTSIIKRYVHG-I-FSQHYK-ATIGVDFALKVIEWD------------PN--TVVRLQLWDIAGQERF   63 (201)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHC-C-CCCCCC-CCCCEEEEEEEEEEC------------CC--EEEEEEEEECCCCCCC
T ss_conf             97999999997899999999829-9-999888-875677899899967------------98--1999999868998322


Q ss_pred             CCCCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHH
Q ss_conf             22246632899998730374788501234542113457767321578898888764332224577777875203204677
Q gi|254780226|r   81 ASKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIV  160 (367)
Q Consensus        81 A~~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~  160 (367)
                          ..|-.   ...|+|+++|.|.|....+.          .+.       +.         .|-+             
T Consensus        64 ----~~l~~---~y~~~a~~~ilvydvt~~~S----------f~~-------l~---------~w~~-------------   97 (201)
T cd04107          64 ----GGMTR---VYYRGAVGAIIVFDVTRPST----------FEA-------VL---------KWKA-------------   97 (201)
T ss_pred             ----CCCHH---HHCCCCCEEEEEEECCCHHH----------HHH-------HH---------HHHH-------------
T ss_conf             ----20037---55557764799982798899----------998-------99---------9999-------------


Q ss_pred             HHHHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCC-CCCC
Q ss_conf             789999988998875874103443132677762102357641010010034301110101346787788643698-4033
Q gi|254780226|r  161 LLQSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNA-EMII  239 (367)
Q Consensus       161 ~~~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~-~~i~  239 (367)
                                 .+..  .++.    .+.+            .-|+++|+||.|..... ....++..+++.+.+. .++.
T Consensus        98 -----------~i~~--~~~~----~~~~------------~ipiilVgNK~DL~~~~-~v~~ee~~~~a~~~~~~~~~E  147 (201)
T cd04107          98 -----------DLDS--KVTL----PNGE------------PIPCLLLANKCDLKKRL-AKDGEQMDQFCKENGFIGWFE  147 (201)
T ss_pred             -----------HHHH--HHHC----CCCC------------CCCEEEEEECCCCCCCC-CCCHHHHHHHHHHCCCCEEEE
T ss_conf             -----------9999--8621----3789------------87189986655641125-689999999999779980999


Q ss_pred             CCCHHHHHH
Q ss_conf             210024665
Q gi|254780226|r  240 ISAAIEAEI  248 (367)
Q Consensus       240 isa~~E~ei  248 (367)
                      +||+...-+
T Consensus       148 tSAktg~nV  156 (201)
T cd04107         148 TSAKEGINI  156 (201)
T ss_pred             ECCCCCCCH
T ss_conf             779999498


No 155
>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily.  Rit (Ras-like protein in all tissues), Rin (Ras-like protein in neurons) and Ric (Ras-related protein which interacts with calmodulin) form a subfamily with several unique structural and functional characteristics.   These proteins all lack a the C-terminal CaaX lipid-binding motif typical of Ras family proteins, and Rin and Ric contain calmodulin-binding domains.  Rin, which is expressed only in neurons, induces neurite outgrowth in rat pheochromocytoma cells through its association with calmodulin and its activation of endogenous Rac/cdc42.  Rit, which is ubiquitously expressed in mammals, inhibits growth-factor withdrawl-mediated apoptosis and induces neurite extension in pheochromocytoma cells.  Rit and Rin are both able to form a ternary complex with PAR6, a cell polarity-regulating protein, and Rac/cdc42.  This ternary complex is proposed to have physiological function in processes such as tumorigenesis.  Activated Ric is likely to sign
Probab=98.01  E-value=0.00016  Score=50.17  Aligned_cols=150  Identities=21%  Similarity=0.287  Sum_probs=85.9

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337997685558777642186502335799985122354322
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      .||-++|-++||||++....+...  =...|. +||...... .+          ..+++   ...+++.|.||--    
T Consensus         3 ~Kiv~lGd~~VGKTsli~r~~~~~--f~~~~~-pTi~~~~~~-~i----------~i~~~---~~~l~iwDtaGqe----   61 (172)
T cd04141           3 YKIVMLGAGGVGKSAVTMQFISHS--FPDYHD-PTIEDAYKQ-QA----------RIDNE---PALLDILDTAGQA----   61 (172)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHCC--CCCCCC-CCCCCCEEE-EE----------EECCE---EEEEEEEECCCCC----
T ss_conf             699999999977999999997098--998758-842220369-99----------99999---9999999788851----


Q ss_pred             CCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH
Q ss_conf             24663289999873037478850123454211345776732157889888876433222457777787520320467778
Q gi|254780226|r   83 KGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLL  162 (367)
Q Consensus        83 ~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~  162 (367)
                      +=+.+-..   .+|+||++|.|-|...-..             ++            .+. .|-                
T Consensus        62 ~~~~l~~~---~~r~a~~~ilvydvt~~~S-------------f~------------~~~-~w~----------------   96 (172)
T cd04141          62 EFTAMRDQ---YMRCGEGFIICYSVTDRHS-------------FQ------------EAS-EFK----------------   96 (172)
T ss_pred             CCCCCHHH---HHCCCCEEEEEECCCCHHH-------------HH------------HHH-HHH----------------
T ss_conf             35745155---6427865688731688889-------------99------------999-999----------------


Q ss_pred             HHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             99999889988758741034431326777621023576410100100343011101013467877886436984033210
Q gi|254780226|r  163 QSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIISA  242 (367)
Q Consensus       163 ~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~isa  242 (367)
                              +.+..   .+.     .             ..-|+++|+||.|....+ ....++..+++.+.+..++-+||
T Consensus        97 --------~~i~~---~~~-----~-------------~~~piilvGNK~DL~~~r-~Vs~~e~~~~a~~~~~~f~EtSA  146 (172)
T cd04141          97 --------KLITR---VRL-----T-------------EDIPLVLVGNKVDLESQR-QVTTEEGRNLAREFNCPFFETSA  146 (172)
T ss_pred             --------HHHHH---HHC-----C-------------CCCCEEEEEECCCHHHHC-CCCHHHHHHHHHHCCCEEEEECC
T ss_conf             --------99999---728-----8-------------998689985045667618-88999999999985997999747


Q ss_pred             HHHHHH
Q ss_conf             024665
Q gi|254780226|r  243 AIEAEI  248 (367)
Q Consensus       243 ~~E~ei  248 (367)
                      +....+
T Consensus       147 k~~~nV  152 (172)
T cd04141         147 ALRHYI  152 (172)
T ss_pred             CCCCCH
T ss_conf             888288


No 156
>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=98.00  E-value=5.6e-05  Score=53.32  Aligned_cols=88  Identities=19%  Similarity=0.297  Sum_probs=64.0

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      +|.|=++||..||||+..|.+-|-..+.+..|-=+|..|..-.-.+                 -..++.++|.|||++++
T Consensus        31 sltILvlGKtGVGKSsTINSifgE~~~~~~aF~~~t~r~~~v~~tv-----------------~G~kl~iIDTPGL~~~~   93 (249)
T cd01853          31 SLTILVLGKTGVGKSSTINSIFGERKAATSAFQSETLRVREVSGTV-----------------DGFKLNIIDTPGLLESV   93 (249)
T ss_pred             EEEEEEEECCCCCHHHHHHHHCCCCCCCCCCCCCCCCCEEEEEEEE-----------------CCEEEEEECCCCCCCCC
T ss_conf             3699998068764577677650854134477677886508998753-----------------34489986089877665


Q ss_pred             CCCCCCHHHHHHHHHC------CCEEEEEECC
Q ss_conf             2246632899998730------3747885012
Q gi|254780226|r   82 SKGEGLGNQFLAHIRE------VDAIIHVLRC  107 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~------aDalihVVda  107 (367)
                      +.+ ..--+.|+.|+.      -|++++|=|-
T Consensus        94 ~~~-~~N~k~l~~iKr~l~~~~~DvvLYvDRL  124 (249)
T cd01853          94 MDQ-RVNRKILSSIKRYLKKKTPDVVLYVDRL  124 (249)
T ss_pred             CCC-HHHHHHHHHHHHHHCCCCCCEEEEEECC
T ss_conf             422-1309999999999628999789998457


No 157
>cd04147 Ras_dva Ras-dva subfamily.  Ras-dva (Ras - dorsal-ventral anterior localization) subfamily consists of a set of proteins characterized only in Xenopus leavis, to date.  In Xenopus Ras-dva expression is activated by the transcription factor Otx2 and begins during gastrulation throughout the anterior ectoderm.  Ras-dva expression is inhibited in the anterior neural plate by factor Xanf1.  Downregulation of Ras-dva results in head development abnormalities through the inhibition of several regulators of the anterior neural plate and folds patterning, including Otx2, BF-1, Xag2, Pax6, Slug, and Sox9.  Downregulation of Ras-dva also interferes with the FGF-8a signaling within the anterior ectoderm.  Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid.  Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.
Probab=97.99  E-value=0.00016  Score=50.30  Aligned_cols=80  Identities=21%  Similarity=0.242  Sum_probs=50.3

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCE-EEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             486752888788899998740489873666867448833-7997685558777642186502335799985122354322
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNS-GEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~-g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      ||-++|-++||||+|.+..+..  .=..+|+ +|++... -.+.+            ++   .+..+++.|.||-    .
T Consensus         1 KIvvlGd~~VGKTSLi~rf~~~--~F~~~y~-~Ti~~~~~k~~~v------------~~---~~v~l~i~DtaG~----e   58 (198)
T cd04147           1 RLVFMGAAGVGKTALIQRFLYD--TFEPKYR-RTVEEMHRKEYEV------------GG---VSLTLDILDTSGS----Y   58 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHC--CCCCCCC-CCHHHEEEEEEEE------------CC---EEEEEEEEECCCC----C
T ss_conf             9899998997799999999859--8998888-8725418899998------------99---7999999978775----1


Q ss_pred             CCCCCHHHHHHHHHCCCEEEEEECCC
Q ss_conf             24663289999873037478850123
Q gi|254780226|r   83 KGEGLGNQFLAHIREVDAIIHVLRCF  108 (367)
Q Consensus        83 ~G~GlGN~FL~~ir~aDalihVVdaf  108 (367)
                      +-..+   .-..+|+||++|.|-|..
T Consensus        59 ~~~~l---~~~~~r~a~~~ilVyDit   81 (198)
T cd04147          59 SFPAM---RKLSIQNSDAFALVYAVD   81 (198)
T ss_pred             CCHHH---HHHHCCCCCEEEEEEECC
T ss_conf             30145---555415886689996169


No 158
>cd04145 M_R_Ras_like M-Ras/R-Ras-like subfamily.  This subfamily contains R-Ras2/TC21, M-Ras/R-Ras3, and related members of the Ras family. M-Ras is expressed in lympho-hematopoetic cells.  It interacts with some of the known Ras effectors, but appears to also have its own effectors.  Expression of mutated M-Ras leads to transformation of several types of cell lines, including hematopoietic cells, mammary epithelial cells, and fibroblasts.  Overexpression of M-Ras is observed in carcinomas from breast, uterus, thyroid, stomach, colon, kidney, lung, and rectum.  In addition, expression of a constitutively active M-Ras mutant in murine bone marrow induces a malignant mast cell leukemia that is distinct from the monocytic leukemia induced by H-Ras.  TC21, along with H-Ras, has been shown to regulate the branching morphogenesis of ureteric bud cell branching in mice.  Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an ali
Probab=97.99  E-value=0.00018  Score=49.91  Aligned_cols=149  Identities=16%  Similarity=0.226  Sum_probs=85.4

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      .+||-++|-++||||+|.+..+.. . =..+|.     |.+|.......       ..+++   ..++++.|.||--.  
T Consensus         2 t~Kiv~lGd~~VGKTsli~r~~~~-~-f~~~y~-----~Ti~~~~~k~~-------~~~~~---~~~l~iwDtaG~e~--   62 (164)
T cd04145           2 TYKLVVVGGGGVGKSALTIQFIQS-Y-FVTDYD-----PTIEDSYTKQC-------EIDGQ---WAILDILDTAGQEE--   62 (164)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHCC-C-CCCCCC-----CCEEEEEEEEE-------EECCE---EEEEEEEECCCCCC--
T ss_conf             379999999997889999999809-8-987567-----84135899999-------99999---99999998988603--


Q ss_pred             CCCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHH
Q ss_conf             22466328999987303747885012345421134577673215788988887643322245777778752032046777
Q gi|254780226|r   82 SKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVL  161 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~  161 (367)
                        -+.+-.   ..+|+||+++.|-|...-.       +   .++               +++-|+..             
T Consensus        63 --~~~~~~---~~~~~a~~~ilvydi~~~~-------S---f~~---------------~~~~~~~i-------------   99 (164)
T cd04145          63 --FSAMRE---QYMRTGEGFLLVFSVTDRG-------S---FEE---------------VDKFHTQI-------------   99 (164)
T ss_pred             --CCHHHH---HHHCCCCCCEEEEECCCHH-------H---HHH---------------HHHHHHHH-------------
T ss_conf             --125679---8734678746898567354-------3---999---------------99999999-------------


Q ss_pred             HHHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf             89999988998875874103443132677762102357641010010034301110101346787788643698403321
Q gi|254780226|r  162 LQSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIIS  241 (367)
Q Consensus       162 ~~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~is  241 (367)
                                 ++       .            ..   ...-|+++|+||+|.... .....++.++++.+.+..++-+|
T Consensus       100 -----------~~-------~------------~~---~~~~piilVgNK~DL~~~-r~Vs~~e~~~~a~~~~~~~~E~S  145 (164)
T cd04145         100 -----------LR-------V------------KD---RDEFPMILVGNKADLEHQ-RKVSREEGQELARKLKIPYIETS  145 (164)
T ss_pred             -----------HH-------H------------CC---CCCCCEEEECCCCCHHHH-CCCCHHHHHHHHHHCCCEEEEEC
T ss_conf             -----------98-------6------------18---877752653034573540-88999999999998199899985


Q ss_pred             CHHHH
Q ss_conf             00246
Q gi|254780226|r  242 AAIEA  246 (367)
Q Consensus       242 a~~E~  246 (367)
                      |+...
T Consensus       146 Ak~~~  150 (164)
T cd04145         146 AKDRL  150 (164)
T ss_pred             CCCCC
T ss_conf             48682


No 159
>cd04136 Rap_like Rap-like subfamily.  The Rap subfamily consists of the Rap1, Rap2, and RSR1.  Rap subfamily proteins perform different cellular functions, depending on the isoform and its subcellular localization. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules.  Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and microsomal membrane of the pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts.   Rap1 localizes in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines.  Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands.  In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres. 
Probab=97.99  E-value=0.00013  Score=50.76  Aligned_cols=147  Identities=18%  Similarity=0.250  Sum_probs=83.7

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEE-EEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337-99768555877764218650233579998512235432
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSG-EVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g-~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      +||-++|-++||||+|.+..+.. . =..+|. +||....- .+.            .+++   ...+++.|.||--.  
T Consensus         2 fKivllGd~~VGKTsli~r~~~~-~-f~~~y~-~Ti~~~~~k~i~------------~~~~---~~~l~iwDtaG~e~--   61 (163)
T cd04136           2 YKVVVLGSGGVGKSALTVQFVQG-I-FVEKYD-PTIEDSYRKQIE------------VDGQ---QCMLEILDTAGTEQ--   61 (163)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHC-C-CCCCCC-CCCCCEEEEEEE------------ECCE---EEEEEECCCCCCHH--
T ss_conf             19999899998899999999719-5-988669-954206999999------------9999---99998645765445--


Q ss_pred             CCCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHH
Q ss_conf             22466328999987303747885012345421134577673215788988887643322245777778752032046777
Q gi|254780226|r   82 SKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVL  161 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~  161 (367)
                        -+.+-.   ..+|+||++|.|-|...-..             ++            .+.. |                
T Consensus        62 --~~~~~~---~y~~~a~~~ilvydvt~~~S-------------f~------------~l~~-~----------------   94 (163)
T cd04136          62 --FTAMRD---LYIKNGQGFVLVYSITSQSS-------------FN------------DLQD-L----------------   94 (163)
T ss_pred             --HHHHHH---HHHCCCCEEEEEECCCCHHH-------------HH------------HHHH-H----------------
T ss_conf             --556789---88346876999704898899-------------99------------9999-9----------------


Q ss_pred             HHHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf             89999988998875874103443132677762102357641010010034301110101346787788643698403321
Q gi|254780226|r  162 LQSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIIS  241 (367)
Q Consensus       162 ~~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~is  241 (367)
                                              |. +... .+.   ...-|+++|+||+|....+ ....+....++.+.+..++-+|
T Consensus        95 ------------------------~~-~i~~-~~~---~~~~piilVGnK~Dl~~~r-~v~~~~~~~~a~~~~~~~~E~S  144 (163)
T cd04136          95 ------------------------RE-QILR-VKD---TENVPMVLVGNKCDLEDER-VVSREEGQALARQWGCPFYETS  144 (163)
T ss_pred             ------------------------HH-HHHH-HCC---CCCCCEEEEECCCCHHHHC-CCCHHHHHHHHHHCCCEEEEEC
T ss_conf             ------------------------99-9998-618---8888678762354726407-8999999999998499899974


Q ss_pred             CHHHH
Q ss_conf             00246
Q gi|254780226|r  242 AAIEA  246 (367)
Q Consensus       242 a~~E~  246 (367)
                      |+...
T Consensus       145 Ak~~~  149 (163)
T cd04136         145 AKSKI  149 (163)
T ss_pred             CCCCC
T ss_conf             48780


No 160
>cd04176 Rap2 Rap2 subgroup.  The Rap2 subgroup is part of the Rap subfamily of the Ras family.  It consists of Rap2a, Rap2b, and Rap2c.  Both isoform 3 of the human mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4) and Traf2- and Nck-interacting kinase (TNIK) are putative effectors of Rap2 in mediating the activation of c-Jun N-terminal kinase (JNK) to regulate the actin cytoskeleton.  In human platelets, Rap2 was shown to interact with the cytoskeleton by binding the actin filaments.  In embryonic Xenopus development, Rap2 is necessary for the Wnt/beta-catenin signaling pathway.  The Rap2 interacting protein 9 (RPIP9) is highly expressed in human breast carcinomas and correlates with a poor prognosis, suggesting a role for Rap2 in breast cancer oncogenesis.  Rap2b, but not Rap2a, Rap2c, Rap1a, or Rap1b, is expressed in human red blood cells, where it is believed to be involved in vesiculation.  A number of additional effector proteins for Rap2 have been identified, incl
Probab=97.98  E-value=0.00017  Score=50.01  Aligned_cols=148  Identities=20%  Similarity=0.289  Sum_probs=84.5

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEE-EEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCC
Q ss_conf             824867528887888999987404898736668674488337-9976855587776421865023357999851223543
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSG-EVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRG   80 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g-~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~g   80 (367)
                      .+||-++|-++||||+|.+..... . -..+|. +|+..... .+.+            ++   .+..+++.|.||--.-
T Consensus         1 ~~KivllGd~~VGKTsli~r~~~~-~-f~~~y~-pTi~~~~~k~i~~------------~~---~~~~l~iwDtaG~e~~   62 (163)
T cd04176           1 EYKVVVLGSGGVGKSALTVQFVSG-T-FIEKYD-PTIEDFYRKEIEV------------DS---SPSVLEILDTAGTEQF   62 (163)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHC-C-CCCCCC-CCCCCEEEEEEEE------------CC---EEEEEEEEECCCCHHH
T ss_conf             939999899997899999999709-8-997558-8523316799998------------88---9999999989885425


Q ss_pred             CCCCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHH
Q ss_conf             22246632899998730374788501234542113457767321578898888764332224577777875203204677
Q gi|254780226|r   81 ASKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIV  160 (367)
Q Consensus        81 A~~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~  160 (367)
                          +.+-   -..+|+||++|.|-|...-+.             ++            .+.+ |               
T Consensus        63 ----~~~~---~~~~~~a~~~ilvydit~~~S-------------f~------------~l~~-~---------------   94 (163)
T cd04176          63 ----ASMR---DLYIKNGQGFIVVYSLVNQQT-------------FQ------------DIKP-M---------------   94 (163)
T ss_pred             ----HHHH---HHHHCCCCEEEEEECCCCHHH-------------HH------------HHHH-H---------------
T ss_conf             ----6788---998557865689712798899-------------99------------9999-9---------------


Q ss_pred             HHHHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCC
Q ss_conf             78999998899887587410344313267776210235764101001003430111010134678778864369840332
Q gi|254780226|r  161 LLQSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIII  240 (367)
Q Consensus       161 ~~~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~i  240 (367)
                                               |. +... ....   ..-|+++|+||.|....+ ....++.++++.+.+..++-+
T Consensus        95 -------------------------~~-~i~~-~~~~---~~~piilVgNK~DL~~~r-~V~~~e~~~~a~~~~~~~~E~  143 (163)
T cd04176          95 -------------------------RD-QIVR-VKGY---EKVPIILVGNKVDLESER-EVSSAEGRALAEEWGCPFMET  143 (163)
T ss_pred             -------------------------HH-HHHH-HHCC---CCCEEEEEEECCCCCCCC-CCCHHHHHHHHHHCCCEEEEE
T ss_conf             -------------------------99-9999-7389---996399974313400127-699999999999859989998


Q ss_pred             CCHHHH
Q ss_conf             100246
Q gi|254780226|r  241 SAAIEA  246 (367)
Q Consensus       241 sa~~E~  246 (367)
                      ||+...
T Consensus       144 SAk~~~  149 (163)
T cd04176         144 SAKSKT  149 (163)
T ss_pred             CCCCCC
T ss_conf             568781


No 161
>cd04118 Rab24 Rab24 subfamily.  Rab24 is distinct from other Rabs in several ways.  It exists primarily in the GTP-bound state, having a low intrinsic GTPase activity; it is not efficiently geranyl-geranylated at the C-terminus; it does not form a detectable complex with Rab GDP-dissociation inhibitors (GDIs); and it has recently been shown to undergo tyrosine phosphorylation when overexpressed in vitro. The specific function of Rab24 still remains unknown. It is found in a transport route between ER-cis-Golgi and late endocytic compartments.  It is putatively involved in an autophagic pathway, possibly directing misfolded proteins in the ER to degradative pathways.  GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state.  Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilita
Probab=97.98  E-value=0.00012  Score=51.03  Aligned_cols=149  Identities=17%  Similarity=0.141  Sum_probs=86.2

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEE--EEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCC
Q ss_conf             24867528887888999987404898736668674488337--9976855587776421865023357999851223543
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSG--EVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRG   80 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g--~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~g   80 (367)
                      |||-+||-+.||||+|++..+.. .-....|+ +||.....  .+.+.            +   ....+++.|.||.-.-
T Consensus         1 vKivlvGd~~VGKTsLi~r~~~~-~f~~~~y~-~tig~~~~~k~i~v~------------~---~~v~l~iwDtaG~e~~   63 (193)
T cd04118           1 VKVVMLGKESVGKTSLVERYVHH-RFLVGPYQ-NTIGAAFVAKRMVVG------------E---RVVTLGIWDTAGSERY   63 (193)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHC-CCCCCCCC-CCCEEEEEEEEEEEC------------C---EEEEEEEEECCCCHHH
T ss_conf             98999996998799999999859-79989978-763058899999999------------9---9999999919997312


Q ss_pred             CCCCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHH
Q ss_conf             22246632899998730374788501234542113457767321578898888764332224577777875203204677
Q gi|254780226|r   81 ASKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIV  160 (367)
Q Consensus        81 A~~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~  160 (367)
                      .    .+   --...|+||++|.|-|...-+.             ++            .+ +.|               
T Consensus        64 ~----~l---~~~y~~~a~~~ilvydit~~~S-------------f~------------~i-~~W---------------   95 (193)
T cd04118          64 E----AM---SRIYYRGAKAAIVCYDLTDSSS-------------FE------------RA-KFW---------------   95 (193)
T ss_pred             H----HH---HHHHHCCCCEEEEEECCCCHHH-------------HH------------HH-HHH---------------
T ss_conf             3----55---7988347744578830698799-------------99------------89-999---------------


Q ss_pred             HHHHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHC---CCHHHHHHHHHHHHHCCCCC
Q ss_conf             789999988998875874103443132677762102357641010010034301110---10134678778864369840
Q gi|254780226|r  161 LLQSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCK---KGNIYTEAVQRLASQQNAEM  237 (367)
Q Consensus       161 ~~~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~---~~n~~~e~i~~l~~~~~~~~  237 (367)
                                                -.+... .     -..-|+++|+||.|....   ......++..+++.+.+..+
T Consensus        96 --------------------------~~~i~~-~-----~~~~~iilVGnK~DL~~~~~~~r~V~~~e~~~~a~~~~~~~  143 (193)
T cd04118          96 --------------------------VKELQN-L-----EEHCKIYLCGTKSDLIEQDRSLRQVDFHDVQDFADEIKAQH  143 (193)
T ss_pred             --------------------------HHHHHH-H-----CCCCCEEEEEECHHHHHCCCCCCCCCHHHHHHHHHHCCCEE
T ss_conf             --------------------------999997-4-----89999799977466322016664468999999999809969


Q ss_pred             CCCCCHHHHHH
Q ss_conf             33210024665
Q gi|254780226|r  238 IIISAAIEAEI  248 (367)
Q Consensus       238 i~isa~~E~ei  248 (367)
                      +-+||+.-.-+
T Consensus       144 ~E~SAktg~nV  154 (193)
T cd04118         144 FETSSKTGQNV  154 (193)
T ss_pred             EEECCCCCCCH
T ss_conf             99838989398


No 162
>cd01860 Rab5_related Rab5-related subfamily.  This subfamily includes Rab5 and Rab22 of mammals, Ypt51/Ypt52/Ypt53 of yeast, and RabF of plants. The members of this subfamily are involved in endocytosis and endocytic-sorting pathways.  In mammals, Rab5 GTPases localize to early endosomes and regulate fusion of clathrin-coated vesicles to early endosomes and fusion between early endosomes. In yeast, Ypt51p family members similarly regulate membrane trafficking through prevacuolar compartments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state.  Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.  Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence mo
Probab=97.98  E-value=0.00033  Score=48.13  Aligned_cols=149  Identities=21%  Similarity=0.247  Sum_probs=84.1

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      .+||-++|-++||||+|.+..+...  =..+|     .|.+|.....-      .-..++   ...++++.|+||-=.  
T Consensus         1 ~~KivviGd~~vGKTsli~r~~~~~--f~~~~-----~~Tig~~~~~k------~i~~~~---~~v~l~iwDtaG~e~--   62 (163)
T cd01860           1 QFKLVLLGDSSVGKSSLVLRFVKNE--FSENQ-----ESTIGAAFLTQ------TVNLDD---TTVKFEIWDTAGQER--   62 (163)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHCC--CCCCC-----CCCCCEEEEEE------EEEECC---EEEEEEEEECCCCHH--
T ss_conf             9799999959968999999994398--99986-----88666788999------999999---999999997999710--


Q ss_pred             CCCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHH
Q ss_conf             22466328999987303747885012345421134577673215788988887643322245777778752032046777
Q gi|254780226|r   82 SKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVL  161 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~  161 (367)
                        -+.+-.   ..+|+||+++.|.|...-..             ++-            ++ .|-               
T Consensus        63 --~~~~~~---~~~~~a~~~ilvydit~~~S-------------f~~------------~~-~w~---------------   96 (163)
T cd01860          63 --YRSLAP---MYYRGAAAAIVVYDITSEES-------------FEK------------AK-SWV---------------   96 (163)
T ss_pred             --HHHHHH---HHHCCCCCEEEEEECCCHHH-------------HHH------------HH-HHH---------------
T ss_conf             --027889---88516771499981899799-------------999------------99-999---------------


Q ss_pred             HHHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf             89999988998875874103443132677762102357641010010034301110101346787788643698403321
Q gi|254780226|r  162 LQSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIIS  241 (367)
Q Consensus       162 ~~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~is  241 (367)
                           ..    +..         ...             ..-|+++|+||+|..... ....++..+++.+.+..++-+|
T Consensus        97 -----~~----i~~---------~~~-------------~~~~iilVgnK~DL~~~r-~V~~~e~~~~a~~~~~~~~E~S  144 (163)
T cd01860          97 -----KE----LQR---------NAS-------------PNIIIALVGNKADLESKR-QVSTEEAQEYADENGLLFFETS  144 (163)
T ss_pred             -----HH----HHH---------HCC-------------CCCEEEEEEECCCHHHCC-CCCHHHHHHHHHHCCCEEEEEC
T ss_conf             -----99----998---------559-------------872367755335756508-9999999999998299799986


Q ss_pred             CHHHH
Q ss_conf             00246
Q gi|254780226|r  242 AAIEA  246 (367)
Q Consensus       242 a~~E~  246 (367)
                      |+...
T Consensus       145 Ak~~~  149 (163)
T cd01860         145 AKTGE  149 (163)
T ss_pred             CCCCC
T ss_conf             26590


No 163
>cd01861 Rab6 Rab6 subfamily.  Rab6 is involved in microtubule-dependent transport pathways through the Golgi and from endosomes to the Golgi. Rab6A of mammals is implicated in retrograde transport through the Golgi stack, and is also required for a slow, COPI-independent, retrograde transport pathway from the Golgi to the endoplasmic reticulum (ER). This pathway may allow Golgi residents to be recycled through the ER for scrutiny by ER quality-control systems. Yeast Ypt6p, the homolog of the mammalian Rab6 GTPase, is not essential for cell viability. Ypt6p acts in endosome-to-Golgi, in intra-Golgi retrograde transport, and possibly also in Golgi-to-ER trafficking.  GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state.  Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate
Probab=97.98  E-value=0.00036  Score=47.92  Aligned_cols=147  Identities=21%  Similarity=0.258  Sum_probs=81.0

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      ||-+||-++||||||.+..... . -..+|     .|.+|.-...     +.. -+++   .+.++++.|+||--.    
T Consensus         2 Ki~vvG~~~vGKTsli~r~~~~-~-f~~~~-----~~tig~d~~~-----k~v-~~~~---~~~~l~i~D~~g~e~----   61 (161)
T cd01861           2 KLVFLGDQSVGKTSIITRFMYD-T-FDNQY-----QATIGIDFLS-----KTM-YLED---KTVRLQLWDTAGQER----   61 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHHHC-C-CCCCC-----CCCCCEEEEE-----EEE-EECC---EEEEEEEEECCCCHH----
T ss_conf             7999997997899999999319-9-99984-----8975678899-----999-9999---999999997998531----


Q ss_pred             CCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Q ss_conf             46632899998730374788501234542113457767321578898888764332224577777875203204677789
Q gi|254780226|r   84 GEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLLQ  163 (367)
Q Consensus        84 G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~~  163 (367)
                         ..+-.-..++++|++|.|-|....+                .++         .+. +|                  
T Consensus        62 ---~~~~~~~~~~~~~~~ilvfd~t~~~----------------Sf~---------~~~-~w------------------   94 (161)
T cd01861          62 ---FRSLIPSYIRDSSVAVVVYDITNRQ----------------SFD---------NTD-KW------------------   94 (161)
T ss_pred             ---HHHHHHHHHHHHCEEEEEEECCCHH----------------HHH---------HHH-HH------------------
T ss_conf             ---5788898866525899998479989----------------999---------999-99------------------


Q ss_pred             HHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCCCH
Q ss_conf             99998899887587410344313267776210235764101001003430111010134678778864369840332100
Q gi|254780226|r  164 SIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIISAA  243 (367)
Q Consensus       164 ~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~isa~  243 (367)
                               +..   ++..   .             ...-|+++|+||+|.+... ....++...++.+.+..++-+||+
T Consensus        95 ---------~~~---i~~~---~-------------~~~~~ivlvGnK~Dl~~~r-~v~~~e~~~~a~~~~~~y~E~Sak  145 (161)
T cd01861          95 ---------IDD---VRDE---R-------------GNDVIIVLVGNKTDLSDKR-QVSTEEGEKKAKELNAMFIETSAK  145 (161)
T ss_pred             ---------HHH---HHHH---C-------------CCCCEEEEEEECCCCHHCC-CCCHHHHHHHHHHCCCEEEEECCC
T ss_conf             ---------999---9986---5-------------7898499961021102217-789999999999849989998347


Q ss_pred             HHH
Q ss_conf             246
Q gi|254780226|r  244 IEA  246 (367)
Q Consensus       244 ~E~  246 (367)
                      ...
T Consensus       146 ~~~  148 (161)
T cd01861         146 AGH  148 (161)
T ss_pred             CCC
T ss_conf             780


No 164
>cd01864 Rab19 Rab19 subfamily.  Rab19 proteins are associated with Golgi stacks. Similarity analysis indicated that Rab41 is closely related to Rab19. However, the function of these Rabs is not yet chracterized. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state.  Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.  Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.
Probab=97.98  E-value=0.00027  Score=48.70  Aligned_cols=150  Identities=21%  Similarity=0.223  Sum_probs=84.9

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      .+||-++|-++||||+|....+...  -..+|+ +|+..+...-.+.          .+++   ..++++.|.||--.  
T Consensus         3 ~~Kiv~lGd~~vGKTsli~r~~~~~--f~~~~~-~Ti~~~~~~k~i~----------~~~~---~~~l~iwDtaG~e~--   64 (165)
T cd01864           3 LFKIILIGDSNVGKTCVVQRFKSGT--FSERQG-NTIGVDFTMKTLE----------IEGK---RVKLQIWDTAGQER--   64 (165)
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHCC--CCCCCC-CCCCEEEEEEEEE----------ECCE---EEEEEEEECCCCCC--
T ss_conf             8999999999958999999996499--999879-9754378999999----------9999---99999998999834--


Q ss_pred             CCCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHH
Q ss_conf             22466328999987303747885012345421134577673215788988887643322245777778752032046777
Q gi|254780226|r   82 SKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVL  161 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~  161 (367)
                        -+.+-.   ..+|+||++|.|.|...-..             +            +.+. .|                
T Consensus        65 --~~~l~~---~~~~~a~~~ilvydit~~~S-------------f------------~~~~-~w----------------   97 (165)
T cd01864          65 --FRTITQ---SYYRSANGAIIAYDITRRSS-------------F------------ESVP-HW----------------   97 (165)
T ss_pred             --CCCCCH---HHEECCCEEEEEECCCCHHH-------------H------------HHHH-HH----------------
T ss_conf             --453507---55221566699713899899-------------9------------9999-99----------------


Q ss_pred             HHHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCC-CCCC
Q ss_conf             899999889988758741034431326777621023576410100100343011101013467877886436984-0332
Q gi|254780226|r  162 LQSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAE-MIII  240 (367)
Q Consensus       162 ~~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~-~i~i  240 (367)
                                 +++   ++..    .            ...-|+++|+||.|....+ ....+...+++.+.+.. ++-+
T Consensus        98 -----------~~~---i~~~----~------------~~~~~iilVGNK~DL~~~r-~V~~~~~~~~a~~~~~~~~~E~  146 (165)
T cd01864          98 -----------IEE---VEKY----G------------ASNVVLLLIGNKCDLEEQR-EVLFEEACTLAEKNGMLAVLET  146 (165)
T ss_pred             -----------HHH---HHHH----C------------CCCCCEEEEEECCCHHHHC-CCCHHHHHHHHHHCCCCEEEEE
T ss_conf             -----------999---9987----6------------9998438887723768628-9999999999998399769997


Q ss_pred             CCHHHHH
Q ss_conf             1002466
Q gi|254780226|r  241 SAAIEAE  247 (367)
Q Consensus       241 sa~~E~e  247 (367)
                      ||+.-.-
T Consensus       147 SAk~~~n  153 (165)
T cd01864         147 SAKESQN  153 (165)
T ss_pred             CCCCCCC
T ss_conf             8885819


No 165
>cd04121 Rab40 Rab40 subfamily.  This subfamily contains Rab40a, Rab40b, and Rab40c, which are all highly homologous.  In rat, Rab40c is localized to the perinuclear recycling compartment (PRC), and is distributed in a tissue-specific manor, with high expression in brain, heart, kidney, and testis, low expression in lung and liver, and no expression in spleen and skeletal muscle.  Rab40c is highly expressed in differentiated oligodendrocytes but minimally expressed in oligodendrocyte progenitors, suggesting a role in the vesicular transport of myelin components.  Unlike most other Ras-superfamily proteins, Rab40c was shown to have a much lower affinity for GTP, and an affinity for GDP that is lower than for 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 d
Probab=97.97  E-value=0.00017  Score=50.02  Aligned_cols=149  Identities=17%  Similarity=0.231  Sum_probs=87.5

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337997685558777642186502335799985122354322
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      +||-|+|-++||||+|....+..  .-...|.     |.+|.....-      .-..+++   .+++++.|+||-    -
T Consensus         7 ~KivllGd~~VGKTsl~~r~~~~--~f~~~y~-----~Tig~~~~~k------~~~~~~~---~v~l~iwDtaGq----e   66 (189)
T cd04121           7 LKFLLVGDSDVGKGEILASLQDG--STESPYG-----YNMGIDYKTT------TILLDGR---RVKLQLWDTSGQ----G   66 (189)
T ss_pred             EEEEEECCCCCCHHHHHHHHHCC--CCCCCCC-----CCCCEEEEEE------EEEECCE---EEEEEEECCCCC----C
T ss_conf             99999998997899999999749--9789868-----7653798999------9999999---999999817886----2


Q ss_pred             CCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH
Q ss_conf             24663289999873037478850123454211345776732157889888876433222457777787520320467778
Q gi|254780226|r   83 KGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLL  162 (367)
Q Consensus        83 ~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~  162 (367)
                      +-.++..   ..+|+|+++|.|-|...-..             +            +.++ +|                 
T Consensus        67 ~f~~l~~---~y~r~a~~~ilvyDvt~~~S-------------f------------~~l~-~w-----------------  100 (189)
T cd04121          67 RFCTIFR---SYSRGAQGIILVYDITNRWS-------------F------------DGID-RW-----------------  100 (189)
T ss_pred             CHHHHHH---HHHHHCCCEEEEECCCCHHH-------------H------------HHHH-HH-----------------
T ss_conf             2116789---88663370489822798899-------------9------------9999-99-----------------


Q ss_pred             HHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             99999889988758741034431326777621023576410100100343011101013467877886436984033210
Q gi|254780226|r  163 QSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIISA  242 (367)
Q Consensus       163 ~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~isa  242 (367)
                             +..+.+          ..             ..-|+++|+||+|... +.....+..+++|.+.+..++-+||
T Consensus       101 -------~~~i~~----------~~-------------~~~p~iLVGNK~DL~~-~r~V~~ee~~~~A~~~~~~f~EtSA  149 (189)
T cd04121         101 -------IKEIDE----------HA-------------PGVPKILVGNRLHLAF-KRQVATEQAQAYAERNGMTFFEVSP  149 (189)
T ss_pred             -------HHHHHH----------HC-------------CCCCEEEEEECCCHHH-CCCCCHHHHHHHHHHCCCEEEEECC
T ss_conf             -------999999----------76-------------8987899613255033-0889999999999988999999600


Q ss_pred             HHHHHH
Q ss_conf             024665
Q gi|254780226|r  243 AIEAEI  248 (367)
Q Consensus       243 ~~E~ei  248 (367)
                      +...-+
T Consensus       150 k~g~nV  155 (189)
T cd04121         150 LCNFNI  155 (189)
T ss_pred             CCCCCH
T ss_conf             679398


No 166
>cd01865 Rab3 Rab3 subfamily.  The Rab3 subfamily contains Rab3A, Rab3B, Rab3C, and Rab3D.  All four isoforms were found in mouse brain and endocrine tissues, with varying levels of expression.  Rab3A, Rab3B, and Rab3C localized to synaptic and secretory vesicles; Rab3D was expressed at high levels only in adipose tissue, exocrine glands, and the endocrine pituitary, where it is localized to cytoplasmic secretory granules.  Rab3 appears to control Ca2+-regulated exocytosis. The appropriate GDP/GTP exchange cycle of Rab3A is required for Ca2+-regulated exocytosis to occur, and interaction of the GTP-bound form of Rab3A with effector molecule(s) is widely believed to be essential for this process. Functionally, most studies point toward a role for Rab3 in the secretion of hormones and neurotransmitters. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promot
Probab=97.97  E-value=0.00033  Score=48.14  Aligned_cols=148  Identities=18%  Similarity=0.224  Sum_probs=85.5

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337997685558777642186502335799985122354322
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      +||-++|-++||||+|++..... . =..+|. +||..+...-.+.          .+.+   ..++++.|.||-    .
T Consensus         2 ~KivllGd~~VGKTsli~r~~~~-~-f~~~y~-~Tig~~~~~k~i~----------~~~~---~i~l~iwDtaGq----e   61 (165)
T cd01865           2 FKLLIIGNSSVGKTSFLFRYADD-S-FTSAFV-STVGIDFKVKTVF----------RNDK---RVKLQIWDTAGQ----E   61 (165)
T ss_pred             EEEEEECCCCCCHHHHHHHHHCC-C-CCCCCC-CCCCEEEEEEEEE----------ECCE---EEEEEEEECCCC----C
T ss_conf             89999999996889999999249-8-899768-8763787999999----------9999---999999969998----3


Q ss_pred             CCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH
Q ss_conf             24663289999873037478850123454211345776732157889888876433222457777787520320467778
Q gi|254780226|r   83 KGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLL  162 (367)
Q Consensus        83 ~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~  162 (367)
                      +-+.+-..   ..|+||++|.|-|...-+.             ++            .+. .|-                
T Consensus        62 ~~~~l~~~---y~~~a~~~ilvydit~~~S-------------f~------------~~~-~w~----------------   96 (165)
T cd01865          62 RYRTITTA---YYRGAMGFILMYDITNEES-------------FN------------AVQ-DWS----------------   96 (165)
T ss_pred             CCCCCHHH---HHHCCCEEEEEECCCCHHH-------------HH------------HHH-HHH----------------
T ss_conf             45544154---4113544899851788799-------------99------------999-999----------------


Q ss_pred             HHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             99999889988758741034431326777621023576410100100343011101013467877886436984033210
Q gi|254780226|r  163 QSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIISA  242 (367)
Q Consensus       163 ~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~isa  242 (367)
                              ..+.                     ... ...-|+++|+||.|....+ ....++.++++.+.+..++-+||
T Consensus        97 --------~~i~---------------------~~~-~~~~~iilvgNK~DL~~~r-~v~~~~~~~~a~~~~~~~~E~SA  145 (165)
T cd01865          97 --------TQIK---------------------TYS-WDNAQVILVGNKCDMEDER-VVSSERGRQLADQLGFEFFEASA  145 (165)
T ss_pred             --------HHHH---------------------HHC-CCCCEEEEEECCCCHHHCC-CCCHHHHHHHHHHCCCEEEEECC
T ss_conf             --------9999---------------------868-9872599960242355518-89999999999986997999768


Q ss_pred             HHHH
Q ss_conf             0246
Q gi|254780226|r  243 AIEA  246 (367)
Q Consensus       243 ~~E~  246 (367)
                      +...
T Consensus       146 k~~~  149 (165)
T cd01865         146 KENI  149 (165)
T ss_pred             CCCC
T ss_conf             9890


No 167
>cd04120 Rab12 Rab12 subfamily.  Rab12 was first identified in canine cells, where it was localized to the Golgi complex.  The specific function of Rab12 remains unknown, and inconsistent results about its cellular localization have been reported.  More recent studies have identified Rab12 associated with post-Golgi vesicles, or with other small vesicle-like structures but not with the Golgi complex.  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. 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
Probab=97.95  E-value=0.00062  Score=46.30  Aligned_cols=151  Identities=20%  Similarity=0.268  Sum_probs=86.2

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337997685558777642186502335799985122354322
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      +||=++|-++||||+|++..+..  .=..+|. .||......-.+          ..+++   ..++++-|+||    ..
T Consensus         1 lKIvllGd~gVGKTsLi~rf~~~--~F~~~y~-~Tig~d~~~k~i----------~~~~~---~v~l~IWDTaG----qe   60 (202)
T cd04120           1 LQVIIIGSRGVGKTSLMRRFTDD--TFCEACK-SGVGVDFKIKTV----------ELRGK---KIRLQIWDTAG----QE   60 (202)
T ss_pred             CEEEEECCCCCCHHHHHHHHHCC--CCCCCCC-CCCCEEEEEEEE----------EECCE---EEEEEEEECCC----CC
T ss_conf             98999997997299999999549--9999879-976468899999----------99999---99999997988----61


Q ss_pred             CCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH
Q ss_conf             24663289999873037478850123454211345776732157889888876433222457777787520320467778
Q gi|254780226|r   83 KGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLL  162 (367)
Q Consensus        83 ~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~  162 (367)
                      +-+.+-..   ..|+|+++|.|-|...-+.             +            +.+. .|-                
T Consensus        61 ~f~sl~~~---yyr~a~~~ilVyDit~~~S-------------F------------~~l~-~W~----------------   95 (202)
T cd04120          61 RFNSITSA---YYRSAKGIILVYDITKKET-------------F------------DDLP-KWM----------------   95 (202)
T ss_pred             CCCCCHHH---HHHHHCEEEEEEECCCHHH-------------H------------HHHH-HHH----------------
T ss_conf             24523578---8764144589985688899-------------9------------9999-999----------------


Q ss_pred             HHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHH-CCCCCCCCC
Q ss_conf             9999988998875874103443132677762102357641010010034301110101346787788643-698403321
Q gi|254780226|r  163 QSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQ-QNAEMIIIS  241 (367)
Q Consensus       163 ~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~-~~~~~i~is  241 (367)
                              ..+..                  ...    ...|+++|+||.|....+ ....++.+++|.+ ++..++-+|
T Consensus        96 --------~~i~~------------------~~~----~~~~iiLVGNK~DL~~~R-~Vs~~e~~~~A~~~~~~~f~EtS  144 (202)
T cd04120          96 --------KMIDK------------------YAS----EDAELLLVGNKLDCETDR-EISRQQGEKFAQQITGMRFCEAS  144 (202)
T ss_pred             --------HHHHH------------------HCC----CCCEEEEEEECCCCHHHC-CCCHHHHHHHHHHCCCCEEEECC
T ss_conf             --------99997------------------466----887189876536505317-87999999999827998899925


Q ss_pred             CHHHHHHH
Q ss_conf             00246655
Q gi|254780226|r  242 AAIEAEIS  249 (367)
Q Consensus       242 a~~E~ei~  249 (367)
                      |+...-+.
T Consensus       145 Akt~~nV~  152 (202)
T cd04120         145 AKDNFNVD  152 (202)
T ss_pred             CCCCCCHH
T ss_conf             89996989


No 168
>cd01891 TypA_BipA TypA (tyrosine phosphorylated protein A)/BipA subfamily.  BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants.  BipA was originally described as a protein that is induced in Salmonella typhimurium after exposure to bactericidal/permeability-inducing protein (a cationic antimicrobial protein produced by neutrophils), and has since been identified in E. coli as well.  The properties thus far described for BipA are related to its role in the process of pathogenesis by enteropathogenic E. coli.  It appears to be involved in the regulation of several processes important for infection, including rearrangements of the cytoskeleton of the host, bacterial resistance to host defense peptides, flagellum-mediated cell motility, and expression of K5 capsular genes.  It has been proposed that BipA may utilize a novel mechanism to regulate the expression of target genes.  In addition, BipA from enteropathogenic E. co
Probab=97.95  E-value=0.00018  Score=49.97  Aligned_cols=91  Identities=21%  Similarity=0.256  Sum_probs=49.1

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHH-HHH--HHH---CCCCEEEEEEEEEEECCCC
Q ss_conf             4867528887888999987404898736668674488337997685558-777--642---1865023357999851223
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRM-HKL--AEI---AESKDLVPTRMSFVDIAGL   77 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~-~~l--~~~---~~~~~~~p~~i~~iDvaGL   77 (367)
                      .|+++|-..+|||||..++...... +.. +-.      ..-.+-|... .+.  ..+   .-+..+-..++.++|.||-
T Consensus         4 Nv~iiGHvd~GKTTL~~~Ll~~tg~-~~~-~~~------~~~~~~D~~~~E~ergiTI~~~~~~~~~~~~~~n~IDtPGH   75 (194)
T cd01891           4 NIAIIAHVDHGKTTLVDALLKQSGT-FRE-NEE------VEERVMDSNDLERERGITILAKNTAVTYKDTKINIVDTPGH   75 (194)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHCCC-CCC-CCC------CCEEEECCCHHHHHCCCCEEEEEEEEEECCEEEEEEECCCC
T ss_conf             8999906898799999999997487-630-465------21686147588887287633458999989988999989984


Q ss_pred             CCCCCCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             54322246632899998730374788501234
Q gi|254780226|r   78 VRGASKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        78 v~gA~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      .-       .......-++.||+-|.||||.+
T Consensus        76 ~d-------F~~~~~~~~~~~D~ailVVdA~~  100 (194)
T cd01891          76 AD-------FGGEVERVLSMVDGVLLLVDASE  100 (194)
T ss_pred             HH-------HHHHHHHHHHHCCEEEEEEECCC
T ss_conf             77-------77789877643446789865378


No 169
>cd04116 Rab9 Rab9 subfamily.  Rab9 is found in late endosomes, together with mannose 6-phosphate receptors (MPRs) and the tail-interacting protein of 47 kD (TIP47).  Rab9 is a key mediator of vesicular transport from late endosomes to the trans-Golgi network (TGN) by redirecting the MPRs.  Rab9 has been identified as a key component for the replication of several viruses, including HIV1, Ebola, Marburg, and measles, making it a potential target for inhibiting a variety of viruses.  GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state.  Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.  Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CX
Probab=97.94  E-value=0.0002  Score=49.67  Aligned_cols=153  Identities=17%  Similarity=0.184  Sum_probs=83.2

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337997685558777642186502335799985122354322
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      +||-++|-++||||+|.+..... .= ..+|. +|+..+.-.-.+.          .+++   ..++++.|.||--    
T Consensus         6 ~KivvlGd~~VGKTsli~r~~~~-~f-~~~~~-~Tig~~~~~k~i~----------~~~~---~v~l~iwDtaG~e----   65 (170)
T cd04116           6 LKVILLGDGGVGKSSLMNRYVTN-KF-DTQLF-HTIGVEFLNKDLE----------VDGH---FVTLQIWDTAGQE----   65 (170)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHC-CC-CCCCC-CCCEEEEEEEEEE----------ECCE---EEEEEEEECCCCC----
T ss_conf             99999999997899999999739-89-99888-8760798999999----------9999---9999999899972----


Q ss_pred             CCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH
Q ss_conf             24663289999873037478850123454211345776732157889888876433222457777787520320467778
Q gi|254780226|r   83 KGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLL  162 (367)
Q Consensus        83 ~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~  162 (367)
                      +-+.+-.   ...|+||++|.|-|...-..          .+       ++.         .|-+               
T Consensus        66 ~~~~l~~---~~~~~a~~~ilvydit~~~S----------f~-------~~~---------~w~~---------------  101 (170)
T cd04116          66 RFRSLRT---PFYRGSDCCLLTFAVDDSQS----------FQ-------NLS---------NWKK---------------  101 (170)
T ss_pred             CCCCCHH---HHEECCCEEEEEEECCCHHH----------HH-------HHH---------HHHH---------------
T ss_conf             4352417---66004773399997888799----------99-------999---------9999---------------


Q ss_pred             HHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCC-CCCCCCC
Q ss_conf             999998899887587410344313267776210235764101001003430111010134678778864369-8403321
Q gi|254780226|r  163 QSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQN-AEMIIIS  241 (367)
Q Consensus       163 ~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~-~~~i~is  241 (367)
                           ..+....    ..               .   ...-|+++++||+|..  +.....++.++++.+.+ ..++-+|
T Consensus       102 -----~~~~~~~----~~---------------~---~~~~piilvgnK~Dl~--~r~v~~~e~~~~a~~~~~~~~~E~S  152 (170)
T cd04116         102 -----EFIYYAD----VK---------------E---PESFPFVVLGNKNDIP--ERQVSTEEAQAWCRENGDYPYFETS  152 (170)
T ss_pred             -----HHHHHHC----CC---------------C---CCCCEEEEEECCCHHH--HCCCCHHHHHHHHHHCCCCEEEEEC
T ss_conf             -----9999714----45---------------7---8884099996111130--3788999999999985997899988


Q ss_pred             CHHHHHH
Q ss_conf             0024665
Q gi|254780226|r  242 AAIEAEI  248 (367)
Q Consensus       242 a~~E~ei  248 (367)
                      |+...-+
T Consensus       153 Ak~g~nV  159 (170)
T cd04116         153 AKDATNV  159 (170)
T ss_pred             CCCCCCH
T ss_conf             8888188


No 170
>cd04111 Rab39 Rab39 subfamily.  Found in eukaryotes, Rab39 is mainly found in epithelial cell lines, but is distributed widely in various human tissues and cell lines.  It is believed to be a novel Rab protein involved in regulating Golgi-associated vesicular transport during cellular endocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state.  Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.   Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.
Probab=97.94  E-value=0.0005  Score=46.92  Aligned_cols=151  Identities=19%  Similarity=0.277  Sum_probs=88.0

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEE--EECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCC
Q ss_conf             8248675288878889999874048987366686744883379--97685558777642186502335799985122354
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGE--VAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVR   79 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~--~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~   79 (367)
                      .+||=++|-+.||||+|....+...  =..+|. +||..+...  +.+.           ++   ..+++++.|.||-  
T Consensus         2 ~fKivllGd~~VGKTsL~~rf~~~~--F~~~~~-~Tig~df~~k~i~i~-----------dg---~~v~l~IwDTaGq--   62 (211)
T cd04111           2 QFRLIVIGDSTVGKSSLLKRFTEGR--FAEVSD-PTVGVDFFSRLIEIE-----------PG---VRIKLQLWDTAGQ--   62 (211)
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHCC--CCCCCC-CCCCEEEEEEEEEEC-----------CC---CEEEEEEEECCCC--
T ss_conf             7999999999961999999998199--999868-720168899899977-----------99---5999999979886--


Q ss_pred             CCCCCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHH
Q ss_conf             32224663289999873037478850123454211345776732157889888876433222457777787520320467
Q gi|254780226|r   80 GASKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEI  159 (367)
Q Consensus        80 gA~~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~  159 (367)
                        .+-+.+...+   .|+|+++|.|-|...-+.             ++            .+. .|              
T Consensus        63 --e~~~si~~~y---yr~a~g~ilVyDvt~~~S-------------F~------------~l~-~W--------------   97 (211)
T cd04111          63 --ERFRSITRSY---YRNSVGVLLVFDITNRES-------------FE------------HVH-DW--------------   97 (211)
T ss_pred             --CCCCCCHHHH---HHHCCEEEEEECCCCHHH-------------HH------------HHH-HH--------------
T ss_conf             --3456442877---421244689714777799-------------99------------999-99--------------


Q ss_pred             HHHHHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCC
Q ss_conf             77899999889988758741034431326777621023576410100100343011101013467877886436984033
Q gi|254780226|r  160 VLLQSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMII  239 (367)
Q Consensus       160 ~~~~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~  239 (367)
                                   +++   ++.   ..+            -..-|+++|+||.|.... .....++.+++|.+.+..++-
T Consensus        98 -------------~~e---i~~---~~~------------~~~~~iiLVGNK~DL~~~-R~Vs~ee~~~~A~~~~~~f~E  145 (211)
T cd04111          98 -------------LEE---ARS---HIQ------------PHRPVFILVGHKCDLESQ-RQVTREEAEKLAKDLGMKYIE  145 (211)
T ss_pred             -------------HHH---HHH---HCC------------CCCCEEEEEEECCCHHHH-CCCCHHHHHHHHHHHCCEEEE
T ss_conf             -------------999---999---749------------888538988742312856-788999999999983997999


Q ss_pred             CCCHHHHHH
Q ss_conf             210024665
Q gi|254780226|r  240 ISAAIEAEI  248 (367)
Q Consensus       240 isa~~E~ei  248 (367)
                      +||+...-+
T Consensus       146 tSAK~g~nV  154 (211)
T cd04111         146 TSARTGDNV  154 (211)
T ss_pred             ECCCCCCCH
T ss_conf             759998198


No 171
>cd04106 Rab23_lke Rab23-like subfamily.  Rab23 is a member of the Rab family of small GTPases. In mouse, Rab23 has been shown to function as a negative regulator in the sonic hedgehog (Shh) signalling pathway. Rab23 mediates the activity of Gli2 and Gli3, transcription factors that regulate Shh signaling in the spinal cord, primarily by preventing Gli2 activation in the absence of Shh ligand. Rab23 also regulates a step in the cytoplasmic signal transduction pathway that mediates the effect of Smoothened (one of two integral membrane proteins that are essential components of the Shh signaling pathway in vertebrates). In humans, Rab23 is expressed in the retina.  Mice contain an isoform that shares 93% sequence identity with the human Rab23 and an alternative splicing isoform that is specific to the brain. This isoform causes the murine open brain phenotype, indicating it may have a role in the development of the central nervous system.  GTPase activating proteins (GAPs) interact with G
Probab=97.93  E-value=0.00017  Score=50.13  Aligned_cols=151  Identities=20%  Similarity=0.194  Sum_probs=86.3

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337997685558777642186502335799985122354322
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      |||-++|-++||||+|....+...  =..+|. .|+..+.-.-.+.          .+.. -...++++.|.||--.   
T Consensus         1 iKivvlGd~~VGKTsLi~r~~~~~--f~~~y~-~Tig~~~~~k~i~----------~~~~-~~~v~l~iwDtaG~e~---   63 (162)
T cd04106           1 IKVIVVGNGNVGKSSMIQRFVKGI--FTKDYK-KTIGVDFLEKQIF----------LRQS-DEDVRLMLWDTAGQEE---   63 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHCC--CCCCCC-CCCCCEEEEEEEE----------ECCC-CEEEEEEEEECCCCCC---
T ss_conf             989999999988999999998496--898768-8556257887899----------8679-9799999997899701---


Q ss_pred             CCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH
Q ss_conf             24663289999873037478850123454211345776732157889888876433222457777787520320467778
Q gi|254780226|r   83 KGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLL  162 (367)
Q Consensus        83 ~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~  162 (367)
                       -..+-   -...|+||++|.|-|...-+.             +            +.++ .|                 
T Consensus        64 -~~~l~---~~~~~~a~~~ilvydvt~~~S-------------f------------~~l~-~w-----------------   96 (162)
T cd04106          64 -FDAIT---KAYYRGAQACILVFSTTDRES-------------F------------EAIE-SW-----------------   96 (162)
T ss_pred             -CCCCH---HHHHHHHCCEEEEEECCCHHH-------------H------------HHHH-HH-----------------
T ss_conf             -34152---456123031268840698899-------------9------------9999-99-----------------


Q ss_pred             HHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             99999889988758741034431326777621023576410100100343011101013467877886436984033210
Q gi|254780226|r  163 QSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIISA  242 (367)
Q Consensus       163 ~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~isa  242 (367)
                             ...++.      .           ..      .-|+++|+||.|... +.....++.++++.+.+..++-+||
T Consensus        97 -------~~~~~~------~-----------~~------~~piilVgNK~DL~~-~r~V~~~e~~~~a~~~~~~~~E~SA  145 (162)
T cd04106          97 -------KEKVEA------E-----------CG------DIPMVLVQTKIDLLD-QAVITNEEAEALAKRLQLPLFRTSV  145 (162)
T ss_pred             -------HHHHHH------H-----------CC------CCCEEEEECCHHHHH-CCCCCHHHHHHHHHHCCCEEEEECC
T ss_conf             -------999997------6-----------69------962999840544410-1778999999999986987999868


Q ss_pred             HHHHHH
Q ss_conf             024665
Q gi|254780226|r  243 AIEAEI  248 (367)
Q Consensus       243 ~~E~ei  248 (367)
                      +....+
T Consensus       146 k~~~nV  151 (162)
T cd04106         146 KDDFNV  151 (162)
T ss_pred             CCCCCH
T ss_conf             888298


No 172
>cd00157 Rho Rho (Ras homology) family.  Members of the Rho family include RhoA, Cdc42, Rac, Rnd, Wrch1, RhoBTB, and Rop.  There are 22 human Rho family members identified currently.  These proteins are all involved in the reorganization of the actin cytoskeleton in response to external stimuli.  They also have roles in cell transformation by Ras in cytokinesis, in focal adhesion formation and in the stimulation of stress-activated kinase.  These various functions are controlled through distinct effector proteins and mediated through a GTP-binding/GTPase cycle involving three classes of regulating proteins: GAPs (GTPase-activating proteins), GEFs (guanine nucleotide exchange factors), and GDIs (guanine nucleotide dissociation inhibitors).  Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid.  Lipid binding is essential for membrane attachment, a key feature of most Rho protein
Probab=97.93  E-value=0.00027  Score=48.74  Aligned_cols=81  Identities=21%  Similarity=0.230  Sum_probs=50.7

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEE-EEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337-99768555877764218650233579998512235432
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSG-EVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g-~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      +||-++|-++||||+|.+......  =..+|. +||..+.- .+.            .+++   ..++++.|.||--.- 
T Consensus         1 iKi~llGd~~VGKTsli~r~~~~~--f~~~y~-~Ti~~~~~~~~~------------~~~~---~~~l~iwDt~G~e~~-   61 (171)
T cd00157           1 IKIVVVGDGAVGKTCLLISYTTGK--FPTEYV-PTVFDNYSATVT------------VDGK---QVNLGLWDTAGQEEY-   61 (171)
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCC--CCCCCC-CEEEEEEEEEEE------------ECCE---EEEEEEEECCCCCCC-
T ss_conf             989999999966999999996299--998758-803466689999------------9999---999999989987102-


Q ss_pred             CCCCCCHHHHHHHHHCCCEEEEEECCC
Q ss_conf             224663289999873037478850123
Q gi|254780226|r   82 SKGEGLGNQFLAHIREVDAIIHVLRCF  108 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~aDalihVVdaf  108 (367)
                         +.+-..   .+|+||++|.|-|..
T Consensus        62 ---~~~~~~---~~~~a~~~ilvydit   82 (171)
T cd00157          62 ---DRLRPL---SYPNTDVFLICFSVD   82 (171)
T ss_pred             ---CCCHHH---HHHHCCEEEEEEECC
T ss_conf             ---413223---444265899999689


No 173
>cd04175 Rap1 Rap1 subgroup.  The Rap1 subgroup is part of the Rap subfamily of the Ras family.  It can be further divided into the Rap1a and Rap1b isoforms.  In humans, Rap1a and Rap1b share 95% sequence homology, but are products of two different genes located on chromosomes 1 and 12, respectively.  Rap1a is sometimes called smg p21 or Krev1 in the older literature.  Rap1 proteins are believed to perform different cellular functions, depending on the isoform, its subcellular localization, and the effector proteins it binds.  For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules.  Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and the microsomal membrane of pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts.  High expression of Rap1 has been observed in the n
Probab=97.93  E-value=0.00016  Score=50.34  Aligned_cols=151  Identities=17%  Similarity=0.228  Sum_probs=85.2

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      .+||-++|-++||||+|.+..+.. . =..+|.     |.+|..+...      . ..+++.   ..+++.|.||-    
T Consensus         1 ~fKIvllGd~~VGKTsli~r~~~~-~-f~~~y~-----pTi~~~~~k~------i-~~~~~~---~~l~iwDtaG~----   59 (164)
T cd04175           1 EYKLVVLGSGGVGKSALTVQFVQG-I-FVEKYD-----PTIEDSYRKQ------V-EVDGQQ---CMLEILDTAGT----   59 (164)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHC-C-CCCCCC-----CCEEEEEEEE------E-EECCEE---EEEEECCCCCC----
T ss_conf             929999899997599999999709-2-886568-----8404689999------9-999999---99985147754----


Q ss_pred             CCCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHH
Q ss_conf             22466328999987303747885012345421134577673215788988887643322245777778752032046777
Q gi|254780226|r   82 SKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVL  161 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~  161 (367)
                      .+-+.+-.   ..+|+||++|.|-|.....       +      +            +.++.-|++.             
T Consensus        60 e~~~~l~~---~y~~~a~~~ilvydvt~~~-------S------f------------~~~~~~~~~i-------------   98 (164)
T cd04175          60 EQFTAMRD---LYMKNGQGFVLVYSITAQS-------T------F------------NDLQDLREQI-------------   98 (164)
T ss_pred             HHHHHHHH---HHHCCCCEEEEEEECCCHH-------H------H------------HHHHHHHHHH-------------
T ss_conf             32456788---8735786899996078777-------8------9------------9999999999-------------


Q ss_pred             HHHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf             89999988998875874103443132677762102357641010010034301110101346787788643698403321
Q gi|254780226|r  162 LQSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIIS  241 (367)
Q Consensus       162 ~~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~is  241 (367)
                                  .                 . ...   ...-|+++|+||+|..... ....+..+.++.+.+..++-+|
T Consensus        99 ------------~-----------------~-~~~---~~~~piilvgNK~DL~~~r-~V~~~~~~~~a~~~~~~~~E~S  144 (164)
T cd04175          99 ------------L-----------------R-VKD---TEDVPMILVGNKCDLEDER-VVGKEQGQNLARQWGCAFLETS  144 (164)
T ss_pred             ------------H-----------------H-HCC---CCCCEEEEEECCCCCHHCC-CCCHHHHHHHHHHCCCEEEEEC
T ss_conf             ------------9-----------------8-628---9996399852145722206-8999999999998599999966


Q ss_pred             CHHHHHH
Q ss_conf             0024665
Q gi|254780226|r  242 AAIEAEI  248 (367)
Q Consensus       242 a~~E~ei  248 (367)
                      |+....+
T Consensus       145 Ak~~~nV  151 (164)
T cd04175         145 AKAKINV  151 (164)
T ss_pred             CCCCCCH
T ss_conf             8988178


No 174
>cd04109 Rab28 Rab28 subfamily.  First identified in maize, Rab28 has been shown to be a late embryogenesis-abundant (Lea) protein that is regulated by the plant hormone abcisic acid (ABA).  In Arabidopsis, Rab28 is expressed during embryo development and is generally restricted to provascular tissues in mature embryos.  Unlike maize Rab28, it is not ABA-inducible. Characterization of the human Rab28 homolog revealed two isoforms, which differ by a 95-base pair insertion, producing an alternative sequence for the 30 amino acids at the C-terminus.  The two human isoforms are presumbly the result of alternative splicing.  Since they differ at the C-terminus but not in the GTP-binding region, they are predicted to be targeted to different cellular locations.  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 
Probab=97.92  E-value=0.00036  Score=47.87  Aligned_cols=147  Identities=21%  Similarity=0.344  Sum_probs=86.5

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEE------EECCCHHHHHHHHHCCCCEEEEEEEEEEECCC
Q ss_conf             248675288878889999874048987366686744883379------97685558777642186502335799985122
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGE------VAVPDPRMHKLAEIAESKDLVPTRMSFVDIAG   76 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~------~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaG   76 (367)
                      +||-|+|-+.||||+|....+.. . =..+|.     |.+|.      +.+++            .  ..+.+++.|+||
T Consensus         1 ~KvvllGd~~VGKTSli~rf~~~-~-F~~~y~-----~TiG~d~~~k~i~i~~------------~--~~v~l~iwDtaG   59 (215)
T cd04109           1 FKIVVLGDGAVGKTSLCRRFAKE-G-FGKSYK-----QTIGLDFFSKRVTLPG------------N--LNVTLQVWDIGG   59 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHC-C-CCCCCC-----CCCCEEEEEEEEEECC------------C--CEEEEEEEECCC
T ss_conf             97999999997099999999749-8-988778-----8655788999999879------------9--469999996998


Q ss_pred             CCCCCCCCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCH
Q ss_conf             35432224663289999873037478850123454211345776732157889888876433222457777787520320
Q gi|254780226|r   77 LVRGASKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKS  156 (367)
Q Consensus        77 Lv~gA~~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~  156 (367)
                      -    .....+-.   .-+++++++|.|-|...-+.             +            +.++ .|-.         
T Consensus        60 q----e~~~~~~~---~y~~~a~~~ilVYDitn~~S-------------F------------~~l~-~W~~---------   97 (215)
T cd04109          60 Q----SIGGKMLD---KYIYGAHAVFLVYDVTNSQS-------------F------------ENLE-DWYS---------   97 (215)
T ss_pred             C----CCHHHHHH---HHHHHHCCEEEECCCCCHHH-------------H------------HHHH-HHHH---------
T ss_conf             5----00237899---99975151377414786789-------------9------------9899-9999---------


Q ss_pred             HHHHHHHHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHC-CCHHEECCCHHHHCCCHHHHHHHHHHHHHCCC
Q ss_conf             46777899999889988758741034431326777621023576410-10010034301110101346787788643698
Q gi|254780226|r  157 EEIVLLQSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAK-PILYICNVSEHDCKKGNIYTEAVQRLASQQNA  235 (367)
Q Consensus       157 ~~~~~~~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~K-P~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~  235 (367)
                                 .    +      +..           ....   ..+ |+++|+||.|....+ ....++-+++|.+.+.
T Consensus        98 -----------~----i------~~~-----------~~~~---~~~~~iiLVGNK~DL~~~R-~Vs~ee~~~~A~~~g~  141 (215)
T cd04109          98 -----------M----V------RKV-----------LKSS---ETQPLVVLVGNKTDLEHNR-TVKDDKHARFAQANGM  141 (215)
T ss_pred             -----------H----H------HHH-----------HHCC---CCCCEEEEEEECCCHHHHC-CCCHHHHHHHHHHCCC
T ss_conf             -----------9----9------998-----------5045---7785299997545428647-7699999999998299


Q ss_pred             CCCCCCCHHHHHH
Q ss_conf             4033210024665
Q gi|254780226|r  236 EMIIISAAIEAEI  248 (367)
Q Consensus       236 ~~i~isa~~E~ei  248 (367)
                      .++.+||+....+
T Consensus       142 ~f~E~SAktg~nV  154 (215)
T cd04109         142 ESCLVSAKTGDRV  154 (215)
T ss_pred             EEEEEECCCCCCH
T ss_conf             8999838999498


No 175
>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily.  Rab34, found primarily in the Golgi, interacts with its effector, Rab-interacting lysosomal protein (RILP). This enables its participation in microtubular dynenin-dynactin-mediated repositioning of lysosomes from the cell periphery to the Golgi. A Rab34 (Rah) isoform that lacks the consensus GTP-binding region has been identified in mice.  This isoform is associated with membrane ruffles and promotes macropinosome formation.  Rab36 has been mapped to human chromosome 22q11.2, a region that is homozygously deleted in malignant rhabdoid tumors (MRTs). However, experimental assessments do not implicate Rab36 as a tumor suppressor that would enable tumor formation through a loss-of-function mechanism.  GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state.  Rabs are further re
Probab=97.92  E-value=0.00058  Score=46.50  Aligned_cols=151  Identities=20%  Similarity=0.222  Sum_probs=82.8

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      ||=|+|-++||||+|++..+..  .=..+|.     |.+|.-....     ... .++   .+.++++-|+||--.    
T Consensus         2 KivlvGd~~VGKTsli~r~~~~--~f~~~y~-----~Tig~d~~~k-----~~~-v~~---~~~~l~iwDtaGqe~----   61 (170)
T cd04108           2 KVIVVGDLSVGKTCLINRFCKD--VFDKNYK-----ATIGVDFEME-----RFE-ILG---VPFSLQLWDTAGQER----   61 (170)
T ss_pred             EEEEECCCCCCHHHHHHHHHCC--CCCCCCC-----CCCCEEEEEE-----EEE-ECC---EEEEEEEEECCCCCC----
T ss_conf             8999998998989999999639--8899725-----6345058999-----999-999---999999998999974----


Q ss_pred             CCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Q ss_conf             46632899998730374788501234542113457767321578898888764332224577777875203204677789
Q gi|254780226|r   84 GEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLLQ  163 (367)
Q Consensus        84 G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~~  163 (367)
                      =+.+-.   ...|+||++|.|-|...-..          .+.       +.         .|-.                
T Consensus        62 f~~l~~---~y~r~a~~~ilvyDvt~~~S----------f~~-------~~---------~w~~----------------   96 (170)
T cd04108          62 FKCIAS---TYYRGAQAIIIVFDLTDVAS----------LEH-------TR---------QWLE----------------   96 (170)
T ss_pred             CCCCHH---HHHCCCCEEEEEEECCCHHH----------HHH-------HH---------HHHH----------------
T ss_conf             664437---77327875899997898789----------999-------99---------9999----------------


Q ss_pred             HHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCC-HHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             99998899887587410344313267776210235764101001003430111010-13467877886436984033210
Q gi|254780226|r  164 SIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKG-NIYTEAVQRLASQQNAEMIIISA  242 (367)
Q Consensus       164 ~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~-n~~~e~i~~l~~~~~~~~i~isa  242 (367)
                      .       .+..                      .-...-|+++|+||.|....+. ....+...+++.+.+..++-+||
T Consensus        97 ~-------~~~~----------------------~~~~~~~i~LvgNK~DL~~~~~~~~~~~~~~~~a~~~~~~~~E~SA  147 (170)
T cd04108          97 D-------ALKE----------------------NDPSSVLLFLVGTKKDLSSPAQYALMEQDAIKLAAEMQAEYWSVSA  147 (170)
T ss_pred             H-------HHHH----------------------CCCCCCCEEEEEECCCCCCCCEEEEEHHHHHHHHHHCCCEEEEECC
T ss_conf             9-------9985----------------------0899982999998413798755764489999999877987999855


Q ss_pred             HHHHHH
Q ss_conf             024665
Q gi|254780226|r  243 AIEAEI  248 (367)
Q Consensus       243 ~~E~ei  248 (367)
                      +....+
T Consensus       148 k~g~nV  153 (170)
T cd04108         148 LSGENV  153 (170)
T ss_pred             CCCCCH
T ss_conf             788187


No 176
>KOG0090 consensus
Probab=97.88  E-value=1.3e-05  Score=57.61  Aligned_cols=78  Identities=27%  Similarity=0.472  Sum_probs=57.2

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      .+=|+|+.++|||++|-.|+. ..   ..--+|.|+||.|+-++-+.                 ..+++|+||-..    
T Consensus        40 ~Vll~Gl~dSGKT~LF~qL~~-gs---~~~TvtSiepn~a~~r~gs~-----------------~~~LVD~PGH~r----   94 (238)
T KOG0090          40 AVLLVGLSDSGKTSLFTQLIT-GS---HRGTVTSIEPNEATYRLGSE-----------------NVTLVDLPGHSR----   94 (238)
T ss_pred             CEEEEECCCCCCEEEEEEHHC-CC---CCCEEEEECCCEEEEEECCC-----------------CEEEEECCCCHH----
T ss_conf             689993278983355420013-87---36703210466135763686-----------------238875799588----


Q ss_pred             CCCCHHHHHHHHH---CCCEEEEEECCCC
Q ss_conf             4663289999873---0374788501234
Q gi|254780226|r   84 GEGLGNQFLAHIR---EVDAIIHVLRCFK  109 (367)
Q Consensus        84 G~GlGN~FL~~ir---~aDalihVVdaf~  109 (367)
                         |--+++...-   ++-+|+.|||...
T Consensus        95 ---lR~kl~e~~~~~~~akaiVFVVDSa~  120 (238)
T KOG0090          95 ---LRRKLLEYLKHNYSAKAIVFVVDSAT  120 (238)
T ss_pred             ---HHHHHHHHCCCCCCCEEEEEEEECCC
T ss_conf             ---99999987346552215999983322


No 177
>PTZ00132 GTP-binding nuclear protein; Provisional
Probab=97.88  E-value=0.00031  Score=48.34  Aligned_cols=148  Identities=16%  Similarity=0.187  Sum_probs=86.1

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      .+||=++|-++||||+|.+..+.. .- ..+|. .||..+.....+          ..+++   ..++++-|+||    .
T Consensus         6 ~~KIvllGd~~VGKTsLi~r~~~~-~F-~~~y~-pTig~d~~~~~~----------~~~~~---~i~l~IwDTaG----q   65 (209)
T PTZ00132          6 QFKLILVGDGGVGKTTFVKRHLTG-EF-EKKYI-ATLGVEVHPLKF----------YTNRG---KICFNVWDTAG----Q   65 (209)
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHC-CC-CCCCC-CCCCEEEEEEEE----------EECCE---EEEEEEEECCC----C
T ss_conf             689999999996789999999719-96-99877-760279899999----------99999---99999998999----7


Q ss_pred             CCCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHH
Q ss_conf             22466328999987303747885012345421134577673215788988887643322245777778752032046777
Q gi|254780226|r   82 SKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVL  161 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~  161 (367)
                      -+-++|-..+   .|+|+++|.|-|.+.-+.          .+.               ++ .|-+              
T Consensus        66 e~f~sl~~~y---yr~a~~~ilVfDit~~~S----------F~~---------------l~-~W~~--------------  102 (209)
T PTZ00132         66 EKFGGLRDGY---YIKGQCAIIMFDVTSRIT----------YKN---------------VP-NWHR--------------  102 (209)
T ss_pred             CCCCCCCCHH---HCCCCEEEEEECCCCHHH----------HHH---------------HH-HHHH--------------
T ss_conf             4455665144---248988999843788789----------999---------------99-9999--------------


Q ss_pred             HHHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf             89999988998875874103443132677762102357641010010034301110101346787788643698403321
Q gi|254780226|r  162 LQSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIIS  241 (367)
Q Consensus       162 ~~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~is  241 (367)
                        .        +.      ..            .     ..-|+++|+||.|...  .....+. .+++.+.+..++-+|
T Consensus       103 --e--------i~------~~------------~-----~~ipivLVGNK~DL~~--r~V~~~~-~~~a~~~~~~f~EtS  146 (209)
T PTZ00132        103 --D--------IT------RV------------C-----ENIPIVLVGNKVDVKD--RQVKAKQ-ITFHRKKNLQYYDIS  146 (209)
T ss_pred             --H--------HH------HH------------C-----CCCCEEEEEECCCCCC--CCCCHHH-HHHHHHCCCEEEEEE
T ss_conf             --9--------99------86------------8-----9987899976232241--3557999-999998799899972


Q ss_pred             CHHHHHH
Q ss_conf             0024665
Q gi|254780226|r  242 AAIEAEI  248 (367)
Q Consensus       242 a~~E~ei  248 (367)
                      |+....+
T Consensus       147 AKtg~NV  153 (209)
T PTZ00132        147 AKSNYNF  153 (209)
T ss_pred             CCCCCCH
T ss_conf             6899397


No 178
>cd04103 Centaurin_gamma Centaurin gamma.  The centaurins (alpha, beta, gamma, and delta) are large, multi-domain proteins that all contain an ArfGAP domain and ankyrin repeats, and in some cases, numerous additional domains.  Centaurin gamma contains an additional GTPase domain near its N-terminus.  The specific function of this GTPase domain has not been well characterized, but centaurin gamma 2 (CENTG2) may play a role in the development of autism.  Centaurin gamma 1 is also called PIKE (phosphatidyl inositol (PI) 3-kinase enhancer) and centaurin gamma 2 is also known as AGAP (ArfGAP protein with a GTPase-like domain, ankyrin repeats and a Pleckstrin homology domain) or GGAP.  Three isoforms of PIKE have been identified. PIKE-S (short) and PIKE-L (long) are brain-specific isoforms, with PIKE-S restricted to the nucleus and PIKE-L found in multiple cellular compartments.  A third isoform, PIKE-A was identified in human glioblastoma brain cancers and has been found in various tissues. 
Probab=97.83  E-value=0.0004  Score=47.60  Aligned_cols=143  Identities=15%  Similarity=0.160  Sum_probs=79.8

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337997685558777642186502335799985122354322
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      +||.|+|-++||||++++..+...=  ..+|+ +|.    |.-. .       .-..++.   +..+++.|.||-..   
T Consensus         1 ~KivllGd~~VGKTsl~~Rf~~~~F--~~~~~-pt~----~~~~-~-------~~~vdg~---~~~l~i~DTaG~~~---   59 (158)
T cd04103           1 LKLGIVGNLQSGKSALVHRYLTGSY--VQLES-PEG----GRFK-K-------EVLVDGQ---SHLLLIRDEGGAPD---   59 (158)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHCCC--CCCCC-CCC----CEEE-E-------EEEECCE---EEEEEEEECCCCCC---
T ss_conf             9999999699879999999980947--87444-664----4179-9-------9999999---99999995899834---


Q ss_pred             CCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH
Q ss_conf             24663289999873037478850123454211345776732157889888876433222457777787520320467778
Q gi|254780226|r   83 KGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLL  162 (367)
Q Consensus        83 ~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~  162 (367)
                            .+   ..|.+||+|.|-|...-.       +      +            +.+. .|                 
T Consensus        60 ------~~---~~~~ada~ilVydit~~~-------S------F------------~~v~-~~-----------------   87 (158)
T cd04103          60 ------AQ---FASWVDAVIFVFSLENEA-------S------F------------QTVY-NL-----------------   87 (158)
T ss_pred             ------HH---HHCCCCEEEEEEECCCHH-------H------H------------HHHH-HH-----------------
T ss_conf             ------33---321499899999889888-------9------9------------9999-99-----------------


Q ss_pred             HHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCH-HHHHHHHHHHHHC-CCCCCCC
Q ss_conf             9999988998875874103443132677762102357641010010034301110101-3467877886436-9840332
Q gi|254780226|r  163 QSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGN-IYTEAVQRLASQQ-NAEMIII  240 (367)
Q Consensus       163 ~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n-~~~e~i~~l~~~~-~~~~i~i  240 (367)
                             ...+.+..                     -...-|+++|.||+|.+..+.. +..+..++++.+. +..++-+
T Consensus        88 -------~~~i~~~~---------------------~~~~ipiilvGnK~dl~~~~~r~V~~~e~~~~a~~~~~~~f~Et  139 (158)
T cd04103          88 -------YHQLSSYR---------------------NISEIPLILVGTQDAISESNPRVIDDARARQLCADMKRCSYYET  139 (158)
T ss_pred             -------HHHHHHHC---------------------CCCCCCEEEEEECCCCCCCCCEECCHHHHHHHHHHCCCCEEEEE
T ss_conf             -------99999855---------------------97899689998770036577614799999999985699889990


Q ss_pred             CCHHHH
Q ss_conf             100246
Q gi|254780226|r  241 SAAIEA  246 (367)
Q Consensus       241 sa~~E~  246 (367)
                      ||+...
T Consensus       140 SAk~~~  145 (158)
T cd04103         140 CATYGL  145 (158)
T ss_pred             ECCCCC
T ss_conf             179995


No 179
>cd04135 Tc10 TC10 subfamily.  TC10 is a Rho family protein that has been shown to induce microspike formation and neurite outgrowth in vitro.  Its expression changes dramatically after peripheral nerve injury, suggesting an important role in promoting axonal outgrowth and regeneration.  TC10 regulates translocation of insulin-stimulated GLUT4 in adipocytes and has also been shown to bind directly to Golgi COPI coat proteins.  GTP-bound TC10 in vitro can bind numerous potential effectors.  Depending on its subcellular localization and distinct functional domains, TC10 can differentially regulate two types of filamentous actin in adipocytes.  TC10 mRNAs are highly expressed in three types of mouse muscle tissues:  leg skeletal muscle, cardiac muscle, and uterus; they were also present in brain, with higher levels in adults than in newborns.  TC10 has also been shown to play a role in regulating the expression of cystic fibrosis transmembrane conductance regulator (CFTR) through interacti
Probab=97.81  E-value=0.00064  Score=46.20  Aligned_cols=82  Identities=20%  Similarity=0.240  Sum_probs=50.9

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEE-EEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337-99768555877764218650233579998512235432
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSG-EVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g-~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      +||-++|-++||||+|....... . =..+|. +||..+.. .+.+            ++   .+..+++.|.||--.  
T Consensus         1 ~Kiv~vGd~~VGKTsli~rf~~~-~-f~~~y~-pTi~~~~~~~i~v------------~~---~~~~l~i~DTaG~e~--   60 (174)
T cd04135           1 LKCVVVGDGAVGKTCLLMSYAND-A-FPEEYV-PTVFDHYAVSVTV------------GG---KQYLLGLYDTAGQED--   60 (174)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHC-C-CCCCCC-CEEEEEEEEEEEE------------CC---EEEEEEEEECCCCCC--
T ss_conf             98999998998599999999629-8-998868-8575202279999------------99---999999997976403--


Q ss_pred             CCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             2246632899998730374788501234
Q gi|254780226|r   82 SKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                        =+.+   .-..+|+||++|.|-|...
T Consensus        61 --~~~~---~~~~~~~a~~~ilvydi~~   83 (174)
T cd04135          61 --YDRL---RPLSYPMTDVFLICFSVVN   83 (174)
T ss_pred             --CHHH---HHHHHCCCCEEEEEEECCC
T ss_conf             --1556---5998557876789843797


No 180
>cd04168 TetM_like Tet(M)-like subfamily.  Tet(M), Tet(O), Tet(W), and OtrA are tetracycline resistance genes found in Gram-positive and Gram-negative bacteria.  Tetracyclines inhibit protein synthesis by preventing aminoacyl-tRNA from binding to the ribosomal acceptor site.  This subfamily contains tetracycline resistance proteins that function through ribosomal protection and are typically found on mobile genetic elements, such as transposons or plasmids, and are often conjugative.  Ribosomal protection proteins are homologous to the elongation factors EF-Tu and EF-G.  EF-G and Tet(M) compete for binding on the ribosomes.  Tet(M) has a higher affinity than EF-G, suggesting these two proteins may have overlapping binding sites and that Tet(M) must be released before EF-G can bind.  Tet(M) and Tet(O) have been shown to have ribosome-dependent GTPase activity.  These proteins are part of the GTP translation factor family, which includes EF-G, EF-Tu, EF2, LepA, and SelB.
Probab=97.79  E-value=0.0017  Score=43.40  Aligned_cols=91  Identities=19%  Similarity=0.231  Sum_probs=50.1

Q ss_pred             EEEEEECCCCCHHHHHHHH---HCCCCCCCCCC--CCCCCCCCEEEEECCCHHHHHHHHH---CCCCEEEEEEEEEEECC
Q ss_conf             4867528887888999987---40489873666--8674488337997685558777642---18650233579998512
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNAL---TRTASAQAANY--PFCTIEPNSGEVAVPDPRMHKLAEI---AESKDLVPTRMSFVDIA   75 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~al---T~~~~~~~~~y--pFtTi~pn~g~~~v~d~~~~~l~~~---~~~~~~~p~~i~~iDva   75 (367)
                      .|||+|-..+|||||--++   |+ +....+.-  --|+.|..      |.++ .+-..+   .-+-.+-..++.|+|.|
T Consensus         1 Niai~gH~~~GKTtL~e~lL~~~g-~i~r~G~v~~g~t~~D~~------~eE~-~r~isi~~~~~~~~~~~~~~n~iDtP   72 (237)
T cd04168           1 NIGILAHVDAGKTTLTESLLYTSG-AIRKLGSVDKGTTRTDTM------ELER-QRGITIFSAVASFQWEDTKVNLIDTP   72 (237)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHCC-HHHHCCCEECCCCCCCCH------HHHH-HHCCEEEEEEEEEEECCEEEEEEECC
T ss_conf             989993899899999999999657-122266330683037854------9989-84870310589999899879998898


Q ss_pred             CCCCCCCCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             2354322246632899998730374788501234
Q gi|254780226|r   76 GLVRGASKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        76 GLv~gA~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      |-.--.+       ....-+|-+|+-+.||||..
T Consensus        73 G~~dF~~-------e~~~al~~~D~av~Vv~a~~   99 (237)
T cd04168          73 GHMDFIA-------EVERSLSVLDGAILVISAVE   99 (237)
T ss_pred             CCHHHHH-------HHHHHHHHCCCEEEEEECCC
T ss_conf             8465666-------89889763481699996588


No 181
>cd00877 Ran Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases. Ran GTPase is involved in diverse biological functions, such as nuclear transport, spindle formation during mitosis, DNA replication, and cell division.  Among the Ras superfamily, Ran is a unique small G protein.  It does not have a lipid modification motif at the C-terminus to bind to the membrane, which is often observed within the Ras superfamily.  Ran may therefore interact with a wide range of proteins in various intracellular locations.  Like other GTPases, Ran exists in GTP- and GDP-bound conformations that interact differently with effectors.  Conversion between these forms and the assembly or disassembly of effector complexes requires the interaction of regulator proteins.  The intrinsic GTPase activity of Ran is very low, but it is greatly stimulated by a GTPase-activating protein (RanGAP1) located in the cytoplasm. By contrast, RCC1, a guanine nucleotide exchange factor that generates RanGTP, is
Probab=97.79  E-value=0.00091  Score=45.15  Aligned_cols=147  Identities=16%  Similarity=0.148  Sum_probs=82.3

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337997685558777642186502335799985122354322
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      .||=++|-++||||+|....+.. .- ..+|. +||..+.....+.          .++.   ..++++-|.||--.   
T Consensus         1 ~KivlvGd~~VGKTsli~r~~~~-~f-~~~~~-~Tig~~~~~~~~~----------~~~~---~v~l~iwDtaGqe~---   61 (166)
T cd00877           1 FKLVLVGDGGTGKTTFVKRHLTG-EF-EKKYV-ATLGVEVHPLDFH----------TNRG---KIRFNVWDTAGQEK---   61 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHC-CC-CCCCC-CCCCEEEEEEEEE----------ECCE---EEEEEEEECCCCHH---
T ss_conf             98999999998889999999839-99-99868-7325567999999----------9997---99999997578715---


Q ss_pred             CCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH
Q ss_conf             24663289999873037478850123454211345776732157889888876433222457777787520320467778
Q gi|254780226|r   83 KGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLL  162 (367)
Q Consensus        83 ~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~  162 (367)
                       -+.+-   -.-.|+||++|.|.|...-..             +            +.+. +|-                
T Consensus        62 -~~~l~---~~y~~~a~~~ilvyDvt~~~S-------------f------------~~v~-~w~----------------   95 (166)
T cd00877          62 -FGGLR---DGYYIGGQCAIIMFDVTSRVT-------------Y------------KNVP-NWH----------------   95 (166)
T ss_pred             -HHHHH---HHHHCCCCEEEEECCCCCHHH-------------H------------HHHH-HHH----------------
T ss_conf             -66687---887400657998437898889-------------9------------9999-999----------------


Q ss_pred             HHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             99999889988758741034431326777621023576410100100343011101013467877886436984033210
Q gi|254780226|r  163 QSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIISA  242 (367)
Q Consensus       163 ~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~isa  242 (367)
                              ..+.      .    ..             ..-|+++|+||+|.....  . .+...+++.+.+..++-+||
T Consensus        96 --------~~i~------~----~~-------------~~~piilVgNK~Dl~~~~--~-~~~~~~~~~~~~~~~~EtSA  141 (166)
T cd00877          96 --------RDLV------R----VC-------------GNIPIVLCGNKVDIKDRK--V-KAKQITFHRKKNLQYYEISA  141 (166)
T ss_pred             --------HHHH------H----HC-------------CCCCEEEEEECCCCCCCC--C-CHHHHHHHHHCCCEEEEECC
T ss_conf             --------9999------8----68-------------999899999862175036--6-79999999978998999845


Q ss_pred             HHHHHH
Q ss_conf             024665
Q gi|254780226|r  243 AIEAEI  248 (367)
Q Consensus       243 ~~E~ei  248 (367)
                      +....+
T Consensus       142 k~~~nV  147 (166)
T cd00877         142 KSNYNF  147 (166)
T ss_pred             CCCCCH
T ss_conf             899098


No 182
>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]
Probab=97.78  E-value=0.00011  Score=51.23  Aligned_cols=82  Identities=24%  Similarity=0.302  Sum_probs=53.1

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337997685558777642186502335799985122354322
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      +||.++|.+|||||||.+++++. . ....|+-|...+-.+....++.+              ..++++.|+||...-. 
T Consensus         6 ~kivv~G~~g~GKTtl~~~l~~~-~-~~~~~~~t~~~~~~~~~~~~~~~--------------~~~~~~~Dt~gq~~~~-   68 (219)
T COG1100           6 FKIVVLGDGGVGKTTLLNRLVGD-E-FPEGYPPTIGNLDPAKTIEPYRR--------------NIKLQLWDTAGQEEYR-   68 (219)
T ss_pred             EEEEEECCCCCCHHHHHHHHHCC-C-CCCCCCCCEEECCCCCEEECCCC--------------CEEEEEEECCCHHHHH-
T ss_conf             79999999999889999999647-6-76556761454043203622666--------------0026767679869999-


Q ss_pred             CCCCCHHHHH-HHHHCCCEEEEEECCC
Q ss_conf             2466328999-9873037478850123
Q gi|254780226|r   83 KGEGLGNQFL-AHIREVDAIIHVLRCF  108 (367)
Q Consensus        83 ~G~GlGN~FL-~~ir~aDalihVVdaf  108 (367)
                             .+. .-.+.+++++.|+|..
T Consensus        69 -------~~~~~y~~~~~~~l~~~d~~   88 (219)
T COG1100          69 -------SLRPEYYRGANGILIVYDST   88 (219)
T ss_pred             -------HHHHHCCCCCCEEEEEEECC
T ss_conf             -------98875043897899999762


No 183
>cd04128 Spg1 Spg1p.  Spg1p (septum-promoting GTPase) was first identified in the fission yeast S. pombe, where it regulates septum formation in the septation initiation network (SIN) through the cdc7 protein kinase.  Spg1p is an essential gene that localizes to the spindle pole bodies.  When GTP-bound, it binds cdc7 and causes it to translocate to spindle poles. Sid4p (septation initiation defective) is required for localization of Spg1p to the spindle pole body, and the ability of Spg1p to promote septum formation from any point in the cell cycle depends on Sid4p.  Spg1p is negatively regulated by Byr4 and cdc16, which form a two-component GTPase activating protein (GAP) for Spg1p.  The existence of a SIN-related pathway in plants has been proposed.  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
Probab=97.78  E-value=0.00041  Score=47.49  Aligned_cols=84  Identities=18%  Similarity=0.247  Sum_probs=53.4

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337997685558777642186502335799985122354322
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      |||-|+|-++||||+|.+...+.  .=..+|. .|+..+...-.+.          .++   .+.++++.|.||-=    
T Consensus         1 iKivlvGd~~VGKTsLi~rf~~~--~F~~~y~-~Tig~d~~~k~i~----------v~~---~~v~l~iwDtaGqe----   60 (182)
T cd04128           1 LKIGLLGDAQIGKTSLMVKYVEG--EFDEDYI-QTLGVNFMEKTIS----------IRG---TEITFSIWDLGGQR----   60 (182)
T ss_pred             CEEEEECCCCCCHHHHHHHHHCC--CCCCCCC-CCCEEEEEEEEEE----------ECC---EEEEEEEEECCCCH----
T ss_conf             98999999998989999999539--9999988-8733898999999----------999---99999998677648----


Q ss_pred             CCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             246632899998730374788501234
Q gi|254780226|r   83 KGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        83 ~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      +=+.+   .-...|+|+++|.|-|.+.
T Consensus        61 ~f~~~---~~~y~~~a~~~ilvfDit~   84 (182)
T cd04128          61 EFINM---LPLVCNDAVAILFMFDLTR   84 (182)
T ss_pred             HHHHH---HHHHHCCCCEEEEEEECCC
T ss_conf             78999---9998647878999997899


No 184
>cd04177 RSR1 RSR1 subgroup.  RSR1/Bud1p is a member of the Rap subfamily of the Ras family that is found in fungi.  In budding yeasts, RSR1 is involved in selecting a site for bud growth on the cell cortex, which directs the establishment of cell polarization.  The Rho family GTPase cdc42 and its GEF, cdc24, then establish an axis of polarized growth by organizing the actin cytoskeleton and secretory apparatus at the bud site.  It is believed that cdc42 interacts directly with RSR1 in vivo.  In filamentous fungi, polar growth occurs at the tips of hypha and at novel growth sites along the extending hypha.  In Ashbya gossypii, RSR1 is a key regulator of hyphal growth, localizing at the tip region and regulating in apical polarization of the actin cytoskeleton.  Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid.  Lipid binding is essential for membrane attachment, a key featu
Probab=97.77  E-value=0.0013  Score=44.21  Aligned_cols=82  Identities=21%  Similarity=0.301  Sum_probs=51.9

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEE-EEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337-99768555877764218650233579998512235432
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSG-EVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g-~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      +||-++|-++||||+|.+..+.. . =..+|. +|+....- .+.+            +++   ..++++.|.||--.  
T Consensus         2 fKivlvGd~~VGKTsli~rf~~~-~-f~~~y~-pTi~~~~~k~i~i------------~~~---~~~l~iwDtaG~e~--   61 (168)
T cd04177           2 YKIVVLGAGGVGKSALTVQFVQN-V-FIESYD-PTIEDSYRKQVEI------------DGR---QCDLEILDTAGTEQ--   61 (168)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHC-C-CCCCCC-CCCCCEEEEEEEE------------CCE---EEEEEEEECCCCCC--
T ss_conf             19999899997799999999619-3-898658-8333159999999------------999---99999982788623--


Q ss_pred             CCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             2246632899998730374788501234
Q gi|254780226|r   82 SKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                        =+.+-..   .+|+||++|.|-|...
T Consensus        62 --~~~~~~~---~~~~a~~~ilvydvt~   84 (168)
T cd04177          62 --FTAMREL---YIKSGQGFLLVYSVTS   84 (168)
T ss_pred             --CCCCHHH---HHCCCCEEEEECCCCC
T ss_conf             --3345154---5126866798536898


No 185
>TIGR00475 selB selenocysteine-specific translation elongation factor; InterPro: IPR004535   In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3' or 5' non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation .   This family describes the elongation factor SelB, a close homologue of EF-Tu. It may function by replacing EF-Tu. A C-terminal domain not found in EF-Tu is in all SelB sequences in the seed alignment except that from Methanococcus jannaschii. This family should not include an equivalent protein for eukaryotes. ; GO: 0003723 RNA binding, 0003746 translation elongation factor activity, 0005525 GTP binding, 0001514 selenocysteine incorporation, 0005737 cytoplasm.
Probab=97.76  E-value=0.00027  Score=48.77  Aligned_cols=80  Identities=33%  Similarity=0.490  Sum_probs=54.7

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCC------CCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCC
Q ss_conf             248675288878889999874048987366686------74488337997685558777642186502335799985122
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPF------CTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAG   76 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypF------tTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaG   76 (367)
                      |-||+.|==-=|||||..+|||.+..-+..-|=      =|||  .|.++.|=|+.             ...++||||||
T Consensus         1 ~~~at~GHvDHGKT~L~k~LTgi~stsa~~lPeEkqKRG~tID--LGfAy~~l~~~-------------n~~l~~iDvPG   65 (627)
T TIGR00475         1 MIIATAGHVDHGKTTLLKALTGIDSTSADRLPEEKQKRGMTID--LGFAYLPLPDI-------------NKRLGFIDVPG   65 (627)
T ss_pred             CEEEEECCCCHHHHHHHHHHCCCCCHHHHCCCCCCCCCCCEEE--CCCEECCCCCC-------------CCCCEEEECCC
T ss_conf             9687312445047999998506430123127741025766246--04200367777-------------71334785597


Q ss_pred             CCCCCCCCCCCHHHHHH----HHHCCCEEEEEECCC
Q ss_conf             35432224663289999----873037478850123
Q gi|254780226|r   77 LVRGASKGEGLGNQFLA----HIREVDAIIHVLRCF  108 (367)
Q Consensus        77 Lv~gA~~G~GlGN~FL~----~ir~aDalihVVdaf  108 (367)
                           |      .+||+    -+.-+|+.+.||||-
T Consensus        66 -----H------e~fl~n~lAg~~~i~~alLvVda~   90 (627)
T TIGR00475        66 -----H------EKFLSNALAGIGGIDAALLVVDAD   90 (627)
T ss_pred             -----H------HHHHHHHHHHHHHHHHHEEEECCC
T ss_conf             -----3------899999866756540100354157


No 186
>KOG2423 consensus
Probab=97.74  E-value=2.3e-05  Score=55.94  Aligned_cols=61  Identities=34%  Similarity=0.615  Sum_probs=39.7

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337997685558777642186502335799985122354322
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      +-+|.||+||+|||++.|.|-. ..+       |..-|-.|..+|=        +-..-.    -.|-|||.||.|+-.+
T Consensus       308 ISVGfiGYPNvGKSSiINTLR~-KkV-------CkvAPIpGETKVW--------QYItLm----krIfLIDcPGvVyps~  367 (572)
T KOG2423         308 ISVGFIGYPNVGKSSIINTLRK-KKV-------CKVAPIPGETKVW--------QYITLM----KRIFLIDCPGVVYPSS  367 (572)
T ss_pred             EEEEEECCCCCCHHHHHHHHHH-CCC-------CCCCCCCCCCHHH--------HHHHHH----HCEEEECCCCCCCCCC
T ss_conf             2566624888755888888753-453-------1125888840388--------999887----2136744797248888


Q ss_pred             C
Q ss_conf             2
Q gi|254780226|r   83 K   83 (367)
Q Consensus        83 ~   83 (367)
                      .
T Consensus       368 d  368 (572)
T KOG2423         368 D  368 (572)
T ss_pred             C
T ss_conf             7


No 187
>cd01870 RhoA_like RhoA-like subfamily.  The RhoA subfamily consists of RhoA, RhoB, and RhoC.  RhoA promotes the formation of stress fibers and focal adhesions, regulating cell shape, attachment, and motility.  RhoA can bind to multiple effector proteins, thereby triggering different downstream responses.  In many cell types, RhoA mediates local assembly of the contractile ring, which is necessary for cytokinesis.  RhoA is vital for muscle contraction; in vascular smooth muscle cells, RhoA plays a key role in cell contraction, differentiation, migration, and proliferation.  RhoA activities appear to be elaborately regulated in a time- and space-dependent manner to control cytoskeletal changes.  Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid.  Lipid binding is essential for membrane attachment, a key feature of most Rho proteins.  RhoA and RhoC are observed only in geranyl
Probab=97.70  E-value=0.00091  Score=45.17  Aligned_cols=82  Identities=22%  Similarity=0.220  Sum_probs=51.4

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337997685558777642186502335799985122354322
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      +||-++|-++||||+|....+...  =..+|     .|.++..+...-       ..+++   ++++++.|.||--.   
T Consensus         2 ~Ki~liGd~~VGKTsli~r~~~~~--F~~~y-----~pTi~~~~~~~i-------~~~~~---~v~l~iwDtaG~e~---   61 (175)
T cd01870           2 KKLVIVGDGACGKTCLLIVFSKDQ--FPEVY-----VPTVFENYVADI-------EVDGK---QVELALWDTAGQED---   61 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCC--CCCCC-----CCCEEEEEEEEE-------EECCE---EEEEEEEECCCCCC---
T ss_conf             099999989966999999997098--99984-----784368999999-------99999---99999997776613---


Q ss_pred             CCCCCHHHHHHHHHCCCEEEEEECCC
Q ss_conf             24663289999873037478850123
Q gi|254780226|r   83 KGEGLGNQFLAHIREVDAIIHVLRCF  108 (367)
Q Consensus        83 ~G~GlGN~FL~~ir~aDalihVVdaf  108 (367)
                       -..+-.   ...|+||++|.|-|..
T Consensus        62 -~~~~~~---~~~~~a~~~ilvydi~   83 (175)
T cd01870          62 -YDRLRP---LSYPDTDVILMCFSID   83 (175)
T ss_pred             -CCCCHH---HHHCCCCEEEEEEECC
T ss_conf             -232404---4314887899998659


No 188
>pfam05049 IIGP Interferon-inducible GTPase (IIGP). Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence. IIGP is predominantly associated with the Golgi apparatus and also localizes to the endoplasmic reticulum and exerts a distinct role in IFN-induced intracellular membrane trafficking or processing.
Probab=97.67  E-value=0.00061  Score=46.33  Aligned_cols=88  Identities=20%  Similarity=0.238  Sum_probs=57.8

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      ++.||++|-+.+|||||-||+-|...-+-+.-|       +|++..-     ....+|...++-.  +.+.|.||.-.-+
T Consensus        35 ~lnIavtGesG~GkSsfINalRg~g~e~~~aA~-------tGvvetT-----~~~~~Y~hp~~pn--V~lwDLPG~gt~~  100 (375)
T pfam05049        35 PLKIAVTGDSGNGKSSFINALRGIGHEEDGSAP-------TGVVETT-----MKRTPYSHPHFPN--VVLWDLPGLGATN  100 (375)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCC-------CCCEEEC-----CCCCCCCCCCCCC--EEEECCCCCCCCC
T ss_conf             247998548998678999987478987777687-------6876632-----6755678999998--0796289999899


Q ss_pred             CCCCCCHHHHHHH--HHCCCEEEEEECC
Q ss_conf             2246632899998--7303747885012
Q gi|254780226|r   82 SKGEGLGNQFLAH--IREVDAIIHVLRC  107 (367)
Q Consensus        82 ~~G~GlGN~FL~~--ir~aDalihVVda  107 (367)
                      .    --+..|..  ..++|.+|.|.-.
T Consensus       101 f----~~~~Yl~~~~f~~yDfFiiiss~  124 (375)
T pfam05049       101 F----TVETYLEEMKFSEYDFFIIISSE  124 (375)
T ss_pred             C----CHHHHHHHCCCCCCCEEEEEECC
T ss_conf             8----98999987485647789999677


No 189
>cd04133 Rop_like Rop subfamily.  The Rop (Rho-related protein from plants) subfamily plays a role in diverse cellular processes, including cytoskeletal organization, pollen and vegetative cell growth, hormone responses, stress responses, and pathogen resistance.  Rops are able to regulate several downstream pathways to amplify a specific signal by acting as master switches early in the signaling cascade.  They transmit a variety of extracellular and intracellular signals.  Rops are involved in establishing cell polarity in root-hair development, root-hair elongation, pollen-tube growth, cell-shape formation, responses to hormones such as abscisic acid (ABA) and auxin, responses to abiotic stresses such as oxygen deprivation, and disease resistance and disease susceptibility.  An individual Rop can have a unique function or an overlapping function shared with other Rop proteins; in addition, a given Rop-regulated function can be controlled by one or multiple Rop proteins.  For example, 
Probab=97.67  E-value=0.00079  Score=45.59  Aligned_cols=81  Identities=19%  Similarity=0.243  Sum_probs=51.1

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337997685558777642186502335799985122354322
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      +||-++|-++||||+|+...+.. .- ..+|.     |.++..+...      . ..++   ...++++.|.||--.   
T Consensus         2 iKivllGd~~VGKTsL~~rf~~~-~F-~~~~~-----pTi~~~~~~~------i-~v~~---~~~~l~iwDTaG~e~---   61 (176)
T cd04133           2 IKCVTVGDGAVGKTCMLICYTSN-KF-PTDYI-----PTVFDNFSAN------V-SVDG---NTVNLGLWDTAGQED---   61 (176)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHC-CC-CCCCC-----CCEEEEEEEE------E-EECC---EEEEEEEEECCCCCC---
T ss_conf             79999899997799999999659-89-99867-----8535899999------9-9999---899999997999765---


Q ss_pred             CCCCCHHHHHHHHHCCCEEEEEECC
Q ss_conf             2466328999987303747885012
Q gi|254780226|r   83 KGEGLGNQFLAHIREVDAIIHVLRC  107 (367)
Q Consensus        83 ~G~GlGN~FL~~ir~aDalihVVda  107 (367)
                       -+.+-..+   .|+||++|.|-|.
T Consensus        62 -~~~l~~~~---y~~a~~~ilvydi   82 (176)
T cd04133          62 -YNRLRPLS---YRGADVFVLAFSL   82 (176)
T ss_pred             -CCHHHHHH---HCCCCEEEEEEEC
T ss_conf             -42468987---2678757999978


No 190
>pfam08477 Miro Miro-like protein. Mitochondrial Rho proteins (Miro-1 and Miro-2), are atypical Rho GTPases. They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (pfam00036), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis.
Probab=97.60  E-value=0.00063  Score=46.24  Aligned_cols=84  Identities=18%  Similarity=0.182  Sum_probs=54.1

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      ||-++|-++||||||...+....-  ..+++-+|...+.....+.          .++.   ...+++.|.+|--.-.  
T Consensus         1 KivvvG~~~vGKTSLi~r~~~~~f--~~~~~~~~~~~~~~~~~~~----------~~~~---~~~l~i~Dt~g~~~~~--   63 (118)
T pfam08477         1 KVVVIGDKGSGKSSLLSQLVGGEF--PPEIPEEIQGDTLAVDTLE----------VDGD---TELLHIWDFGGREELK--   63 (118)
T ss_pred             CEEEECCCCCCHHHHHHHHHHCCC--CCCCCCCCCCCEEEEEEEE----------ECCC---EEEEEEEECCCCHHHH--
T ss_conf             999999899789999999983988--8766678777768889999----------9992---8999999899967776--


Q ss_pred             CCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             46632899998730374788501234
Q gi|254780226|r   84 GEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        84 G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                           ...-..+++||++|.|.|.+.
T Consensus        64 -----~~~~~~~~~~d~~ilvydit~   84 (118)
T pfam08477        64 -----FEHIIFMKTADAILLVYDLTD   84 (118)
T ss_pred             -----HHHHHHCCCCCEEEEEEECCC
T ss_conf             -----666542258746789997998


No 191
>cd01873 RhoBTB RhoBTB subfamily.  Members of the RhoBTB subfamily of Rho GTPases are present in vertebrates, Drosophila, and Dictyostelium.  RhoBTB proteins are characterized by a modular organization, consisting of a GTPase domain, a proline rich region, a tandem of two BTB (Broad-Complex, Tramtrack, and Bric a brac) domains, and a C-terminal region of unknown function.  RhoBTB proteins may act as docking points for multiple components participating in signal transduction cascades.  RhoBTB genes appeared upregulated in some cancer cell lines, suggesting a participation of RhoBTB proteins in the pathogenesis of particular tumors.  Note that the Dictyostelium RacA GTPase domain is more closely related to Rac proteins than to RhoBTB proteins, where RacA actually belongs.  Thus, the Dictyostelium RacA is not included here.  Most Rho proteins contain a lipid modification site at the C-terminus; however, RhoBTB is one of few Rho subfamilies that lack this feature.
Probab=97.55  E-value=0.00071  Score=45.88  Aligned_cols=93  Identities=17%  Similarity=0.292  Sum_probs=51.0

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCC-CCCCCEEEEECCCH---HHHHHHHHCCCCEEEEEEEEEEECCCC
Q ss_conf             82486752888788899998740489873666867-44883379976855---587776421865023357999851223
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFC-TIEPNSGEVAVPDP---RMHKLAEIAESKDLVPTRMSFVDIAGL   77 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFt-Ti~pn~g~~~v~d~---~~~~l~~~~~~~~~~p~~i~~iDvaGL   77 (367)
                      ++||=+||=++||||+|+.+...+..  ...|.|+ +-.|.++.+.-..-   -+.+.....++   ..+++++-|.|| 
T Consensus         2 t~KiVlvGDs~VGKTsLl~~~~~n~~--~~~~~~~~~~~pTv~~~~~~~~~~~~~~~~~~~vdg---~~v~L~iWDTAG-   75 (195)
T cd01873           2 TIKCVVVGDNAVGKTRLICARACNKT--LTQYQLLATHVPTVWAIDQYRVCQEVLERSRDVVDG---VSVSLRLWDTFG-   75 (195)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHCCC--CCCCCCCCCCCCCCCCCCCCEEEEEECCCCEEEECC---EEEEEEEEECCC-
T ss_conf             77999987899898999977874787--655656667588663333313444430221142189---599999997899-


Q ss_pred             CCCCCCCCCCHHHHHHHHHCCCEEEEEECCC
Q ss_conf             5432224663289999873037478850123
Q gi|254780226|r   78 VRGASKGEGLGNQFLAHIREVDAIIHVLRCF  108 (367)
Q Consensus        78 v~gA~~G~GlGN~FL~~ir~aDalihVVdaf  108 (367)
                         .++ +-  .++  .-+++|+++.+-|..
T Consensus        76 ---~~~-~~--r~~--~y~~~~~~ll~fdv~   98 (195)
T cd01873          76 ---DHD-KD--RRF--AYGRSDVVLLCFSIA   98 (195)
T ss_pred             ---CHH-HC--CCC--CCCCCCEEEEEEECC
T ss_conf             ---620-01--214--356888999999669


No 192
>cd01889 SelB_euk SelB subfamily.  SelB is an elongation factor needed for the co-translational incorporation of selenocysteine.  Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin.  In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu).  It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner.  This allows insertion of selenocysteine at in-frame UGA stop codons.  In E. coli SelB binds GTP, selenocysteyl-tRNAsec and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence).  The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation.  Archaeal and animal mechanisms of selenocysteine incorporation are more complex.  Although the SECIS elements have different secondary structures and conserved elements between archaea and euk
Probab=97.50  E-value=0.00094  Score=45.09  Aligned_cols=96  Identities=22%  Similarity=0.313  Sum_probs=50.3

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCC-CCCC-----CCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCC
Q ss_conf             2486752888788899998740489873-6668-----674488337997685558777642186502335799985122
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQA-ANYP-----FCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAG   76 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~-~~yp-----FtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaG   76 (367)
                      +-++++|--..|||||-.+|++...... ...|     =.||+.-.....++-+..  ...... ..+-..++.|+|.||
T Consensus         1 ~NV~iiGHVDhGKTTL~~~L~~~~~~~~~D~~~eE~eRGITi~~g~~~~~~~~~~~--~~~~~~-~~~~~~~i~~IDtPG   77 (192)
T cd01889           1 VNVGVLGHVDSGKTSLAKALSEIASTAAFDKNPQSQERGITLDLGFSSFYVDKPKH--LRELIN-PGEENLQITLVDCPG   77 (192)
T ss_pred             CEEEEEEECCCCHHHHHHHHHHHCCCHHHHCCHHHHHCCCCEEEEEEEEEECCCCC--CCCCCC-CCCCCEEEEEEECCC
T ss_conf             98999976178999999999833350122135889977971671001378514422--112323-467745899987798


Q ss_pred             CCCCCCCCCCCHHHHHHHHHCCCEEEEEECCC
Q ss_conf             35432224663289999873037478850123
Q gi|254780226|r   77 LVRGASKGEGLGNQFLAHIREVDAIIHVLRCF  108 (367)
Q Consensus        77 Lv~gA~~G~GlGN~FL~~ir~aDalihVVdaf  108 (367)
                      =..-       -.....-++.||+-+.||||.
T Consensus        78 H~df-------~~~~~~g~~~~D~ailvVda~  102 (192)
T cd01889          78 HASL-------IRTIIGGAQIIDLMLLVVDAT  102 (192)
T ss_pred             CHHH-------HHHHHHHHHHCCCCEEEEECC
T ss_conf             3889-------988888874326527999878


No 193
>TIGR00231 small_GTP small GTP-binding protein domain; InterPro: IPR005225   Proteins with a small GTP-binding domain include Ras, RhoA, Rab11, translation elongation factor G, translation initiation factor IF-2, tetratcycline resistance protein TetM, CDC42, Era, ADP-ribosylation factors, tdhF, and many others . In some proteins the domain occurs more than once. Among them there is a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model.; GO: 0005525 GTP binding.
Probab=97.47  E-value=0.0002  Score=49.62  Aligned_cols=98  Identities=24%  Similarity=0.265  Sum_probs=57.2

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCC--CCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCC---
Q ss_conf             824867528887888999987404898736668--674488337997685558777642186502335799985122---
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYP--FCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAG---   76 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~yp--FtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaG---   76 (367)
                      ..+++++|.|++||||+++.+++........+|  .+|.+-....+.+.-..+.    -.. ... ...++++|.||   
T Consensus         3 ~~~~~~~g~~~~Gk~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~----~~~-~~w-~~~~~~~d~~G~~~   76 (186)
T TIGR00231         3 DIKIGIVGDPNVGKSTLLNRLLGNKGSITESGPTDGTTRDYVTESIEEDGKTIT----GAT-FQW-GYKFNLLDTPGLHR   76 (186)
T ss_pred             CEEEEEEECCCCCHHHHHHHHHHCCCCEEECCCCCCCCHHHHEEEEEECCEEEE----EEE-EEC-CEEEEEEECCCCHH
T ss_conf             505899734776604555445410120010232333200000011345580234----343-102-42789862577113


Q ss_pred             CCCCCCCCCCCHHHHHHHHHCCCEEEEEE
Q ss_conf             35432224663289999873037478850
Q gi|254780226|r   77 LVRGASKGEGLGNQFLAHIREVDAIIHVL  105 (367)
Q Consensus        77 Lv~gA~~G~GlGN~FL~~ir~aDalihVV  105 (367)
                      -.....-.+....+....++.+|..++|+
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  105 (186)
T TIGR00231        77 QEDYDALRRLYYPEVLSSLEVLDLVILVL  105 (186)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             55554454332234454443333333222


No 194
>TIGR00436 era GTP-binding protein Era; InterPro: IPR005662   Era is an essential G-protein in Escherichia coli identified originally as a homologue protein to Ras (E. coli Ras-like protein). It binds to GTP/GDP and contains a low intrinsic GTPase activity. Its function remains elusive, although it may be associated with cell division, energy metabolism, and cell-cycle check point. The protein has recently been shown to specifically bind to 16S rRNA and the 30S ribosomal subunit . Involvement of Era in protein synthesis is suggested by the fact that Era depletion results in the translation defect both in vitro and in vivo. A Type 2 KH domain is found near the C-terminus. ; GO: 0003723 RNA binding, 0005525 GTP binding, 0005622 intracellular.
Probab=97.42  E-value=0.00028  Score=48.60  Aligned_cols=90  Identities=28%  Similarity=0.343  Sum_probs=67.3

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEE-EEEEECCCCCCC-C
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357-999851223543-2
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTR-MSFVDIAGLVRG-A   81 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~-i~~iDvaGLv~g-A   81 (367)
                      .++++|.||+||||+.|.+.+....-+...|-||...-.|...-+.                 .+ +-++|+||+-.. .
T Consensus         2 ~~~~~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------------~~~~~~~d~pg~~~~~~   64 (278)
T TIGR00436         2 FVAILGRPNVGKSTLLNKLLGQKISITSPKPQTTRNRISGILTTGA-----------------SQNIIFIDTPGFHEPEK   64 (278)
T ss_pred             CEEECCCCCCCHHHHHHHHHCCCHHCCCCCCHHHHHHHHEEEECCC-----------------CCCEEEEECCCCCCHHH
T ss_conf             1121157765336677766324101002310123433200122366-----------------55157862587651245


Q ss_pred             C-CCCCCHHHHHHHHHCCCEEEEEECCCCC
Q ss_conf             2-2466328999987303747885012345
Q gi|254780226|r   82 S-KGEGLGNQFLAHIREVDAIIHVLRCFKD  110 (367)
Q Consensus        82 ~-~G~GlGN~FL~~ir~aDalihVVdaf~~  110 (367)
                      | -++-+-...-..+...|.++.+++....
T Consensus        65 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (278)
T TIGR00436        65 HKLGELLNKEARSALGGVDLLLFVVDSDEW   94 (278)
T ss_pred             HHHHHHHHHHHHHHHCCCEEEEEEEECCCC
T ss_conf             677888888887531232268898633445


No 195
>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2).  eIF2 is a heterotrimeric translation initiation factor that consists of alpha, beta, and gamma subunits.  The GTP-bound gamma subunit also binds initiator methionyl-tRNA and delivers it to the 40S ribosomal subunit.  Following hydrolysis of GTP to GDP, eIF2:GDP is released from the ribosome.  The gamma subunit has no intrinsic GTPase activity, but is stimulated by the GTPase activating protein (GAP) eIF5, and GDP/GTP exchange is stimulated by the guanine nucleotide exchange factor (GEF) eIF2B.  eIF2B is a heteropentamer, and the epsilon chain binds eIF2.  Both eIF5 and eIF2B-epsilon are known to bind strongly to eIF2-beta, but have also been shown to bind directly to eIF2-gamma.  It is possible that eIF2-beta serves simply as a high-affinity docking site for eIF5 and eIF2B-epsilon, or that eIF2-beta serves a regulatory role.  eIF2-gamma is found only in eukaryotes and archaea.  It is closely related to SelB, the sel
Probab=97.39  E-value=0.00075  Score=45.75  Aligned_cols=23  Identities=43%  Similarity=0.546  Sum_probs=20.4

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCC
Q ss_conf             24867528887888999987404
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRT   25 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~   25 (367)
                      |.|+++|==..||||+.-+||+.
T Consensus         1 vNi~iiGHVDhGKSTLi~~L~g~   23 (203)
T cd01888           1 INIGTIGHVAHGKSTLVKALSGV   23 (203)
T ss_pred             CEEEEEEEECCCHHHHHHHHHCC
T ss_conf             96999988578799999997085


No 196
>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily.  Translocation is mediated by EF-G (also called translocase).  The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA.  This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule.  EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit.  The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G.  On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit.  To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it.  The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well.  The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site.  This group
Probab=97.38  E-value=0.0032  Score=41.46  Aligned_cols=97  Identities=18%  Similarity=0.197  Sum_probs=51.6

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHH--HHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776--4218650233579998512235432
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLA--EIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~--~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      .|||+|-+.+||||+.-++--.+  ..-+.+=..-+-|.-.=+-|.++-...+  .-.-+-.+-..+|.|+|.||-+--.
T Consensus         1 Ni~iigH~~aGKTtL~E~lL~~~--g~i~~~G~V~~g~t~~D~~~~E~~RgiSi~s~~~~~~w~~~~inliDTPG~~DF~   78 (268)
T cd04170           1 NIALVGHSGSGKTTLAEALLYAT--GAIDRLGSVEDGTTVSDYDPEEIKRKMSISTSVAPLEWKGHKINLIDTPGYADFV   78 (268)
T ss_pred             CEEEEECCCCCHHHHHHHHHHHC--CCCCCCCCCCCCCCCCCCCHHHHHCCCCEECCEEEEEECCEEEEEEECCCCHHHH
T ss_conf             98999089999899999999966--9966576545897357787889867967513557888899799998698975799


Q ss_pred             CCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             2246632899998730374788501234
Q gi|254780226|r   82 SKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      .       +....+|-+|+-+.||||..
T Consensus        79 ~-------e~~~aL~v~D~Av~Vida~~   99 (268)
T cd04170          79 G-------ETRAALRAADAALVVVSAQS   99 (268)
T ss_pred             H-------HHHHHHCCCCEEEEEECCCC
T ss_conf             9-------99998404783999941875


No 197
>smart00174 RHO Rho (Ras homology) subfamily of Ras-like small GTPases. Members of this subfamily of Ras-like small GTPases include Cdc42 and Rac, as well as Rho isoforms.
Probab=97.37  E-value=0.0028  Score=41.93  Aligned_cols=79  Identities=23%  Similarity=0.263  Sum_probs=48.7

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEE-EECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             8675288878889999874048987366686744883379-976855587776421865023357999851223543222
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGE-VAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~-~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      |-++|-++||||+|+...+...  =..+|. .||..+... +.            ++++   ..++++.|.||--.    
T Consensus         1 ivllGd~~VGKTsli~r~~~~~--f~~~y~-~Ti~~~~~~~~~------------~~~~---~~~l~i~DtaG~e~----   58 (174)
T smart00174        1 LVVVGDGAVGKTCLLISYTTNA--FPEDYV-PTVFENYSADVE------------VDGK---PVELGLWDTAGQED----   58 (174)
T ss_pred             EEEECCCCCCHHHHHHHHHHCC--CCCCCC-CCEEEEEEEEEE------------ECCE---EEEEEEEECCCCCC----
T ss_conf             5998978975999999995398--999857-850578999999------------9999---99999994898703----


Q ss_pred             CCCCHHHHHHHHHCCCEEEEEECCC
Q ss_conf             4663289999873037478850123
Q gi|254780226|r   84 GEGLGNQFLAHIREVDAIIHVLRCF  108 (367)
Q Consensus        84 G~GlGN~FL~~ir~aDalihVVdaf  108 (367)
                      =+.|-..+   .|+||++|.|-|..
T Consensus        59 ~~~l~~~~---~~~a~~~ilvydvt   80 (174)
T smart00174       59 YDRLRPLS---YPDTDVFLICFSVD   80 (174)
T ss_pred             CCCCCHHH---CCCCCEEEEEEECC
T ss_conf             45450011---04886899997589


No 198
>TIGR00650 MG442 GTP-binding conserved hypothetical protein; InterPro: IPR005289   This is a GTP-binding domain, that was found in proteins from various families (Ras GTPase superfamily, HSR1-related GTP-binding protein), which perform different functions.; GO: 0005525 GTP binding.
Probab=97.33  E-value=0.00026  Score=48.81  Aligned_cols=18  Identities=61%  Similarity=0.951  Sum_probs=16.5

Q ss_pred             EECCCCCHH-------------HHHHHHHCC
Q ss_conf             528887888-------------999987404
Q gi|254780226|r    8 IGLPNVGKS-------------TLFNALTRT   25 (367)
Q Consensus         8 vG~pn~GKS-------------T~f~alT~~   25 (367)
                      +|.||||||             +++|+|-.-
T Consensus         1 ~G~PNVGKSkieYktaievaaGsliN~L~~k   31 (123)
T TIGR00650         1 IGVPNVGKSKIEYKTAIEVAAGSLINLLLNK   31 (123)
T ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHHHHHHHC
T ss_conf             9868987642102345567778899998621


No 199
>COG3596 Predicted GTPase [General function prediction only]
Probab=97.30  E-value=0.001  Score=44.89  Aligned_cols=90  Identities=18%  Similarity=0.248  Sum_probs=63.2

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      +|.+=|+|.+.+|||+++|||=+....+++.-|-||-.++            ++..+++..     .+.+.|.||+=.|-
T Consensus        39 pvnvLi~G~TG~GKSSliNALF~~~~~~v~~vg~~t~~~~------------~~~~~~~~~-----~l~lwDtPG~gdg~  101 (296)
T COG3596          39 PVNVLLMGATGAGKSSLINALFQGEVKEVSKVGVGTDITT------------RLRLSYDGE-----NLVLWDTPGLGDGK  101 (296)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHCCCCEEEECCCCCCCHH------------HHHHHCCCC-----CEEEECCCCCCCCH
T ss_conf             6158974377776889999997026734210466887015------------677412665-----24884378855320


Q ss_pred             CCCCCCHHHHHHHHHCCCEEEEEECCC
Q ss_conf             224663289999873037478850123
Q gi|254780226|r   82 SKGEGLGNQFLAHIREVDAIIHVLRCF  108 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~aDalihVVdaf  108 (367)
                      -+.+-.--..++-+...|.++-++++-
T Consensus       102 ~~D~~~r~~~~d~l~~~DLvL~l~~~~  128 (296)
T COG3596         102 DKDAEHRQLYRDYLPKLDLVLWLIKAD  128 (296)
T ss_pred             HHHHHHHHHHHHHHHHCCEEEEECCCC
T ss_conf             221899999998863224799961477


No 200
>cd01893 Miro1 Miro1 subfamily.  Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs.  Genes encoding Miro-like proteins were found in several eukaryotic organisms.  This CD represents the N-terminal GTPase domain of Miro proteins.  These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis.  Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.
Probab=97.16  E-value=0.0054  Score=39.94  Aligned_cols=81  Identities=21%  Similarity=0.229  Sum_probs=52.1

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337997685558777642186502335799985122354322
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      +||-++|-++||||+|.+......  =..+|| +|++...-.+.            .+++   ..++++.|.||--.   
T Consensus         1 lKiv~vGd~~VGKTsli~r~~~~~--F~~~~~-~t~~~~~~~~~------------~~~~---~v~l~i~DtaG~e~---   59 (166)
T cd01893           1 VRIVLIGDEGVGKSSLIMSLVSEE--FPENVP-RVLPEITIPAD------------VTPE---RVPTTIVDTSSRPQ---   59 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHCC--CCCCCC-CCCCCEEEEEE------------ECCE---EEEEEEEECCCCCC---
T ss_conf             989999999989999999998497--888777-63456899999------------8890---99999998998723---


Q ss_pred             CCCCCHHHHHHHHHCCCEEEEEECCC
Q ss_conf             24663289999873037478850123
Q gi|254780226|r   83 KGEGLGNQFLAHIREVDAIIHVLRCF  108 (367)
Q Consensus        83 ~G~GlGN~FL~~ir~aDalihVVdaf  108 (367)
                       -+.+   ....+|+||+++.|-|..
T Consensus        60 -~~~~---~~~~~~~a~~~ilvydit   81 (166)
T cd01893          60 -DRAN---LAAEIRKANVICLVYSVD   81 (166)
T ss_pred             -CCHH---HHHHHCCCCEEEEEECCC
T ss_conf             -0245---798736898899997089


No 201
>cd01871 Rac1_like Rac1-like subfamily.  The Rac1-like subfamily consists of Rac1, Rac2, and Rac3 proteins, plus the splice variant Rac1b that contains a 19-residue insertion near switch II relative to Rac1.  While Rac1 is ubiquitously expressed, Rac2 and Rac3 are largely restricted to hematopoietic and neural tissues respectively.  Rac1 stimulates the formation of actin lamellipodia and membrane ruffles.  It also plays a role in cell-matrix adhesion and cell anoikis.  In intestinal epithelial cells, Rac1 is an important regulator of migration and mediates apoptosis.  Rac1 is also essential for RhoA-regulated actin stress fiber and focal adhesion complex formation.  In leukocytes, Rac1 and Rac2 have distinct roles in regulating cell morphology, migration, and invasion, but are not essential for macrophage migration or chemotaxis.  Rac3 has biochemical properties that are closely related to Rac1, such as effector interaction, nucleotide binding, and hydrolysis; Rac2 has a slower nucleoti
Probab=97.12  E-value=0.0041  Score=40.73  Aligned_cols=83  Identities=22%  Similarity=0.306  Sum_probs=52.5

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      |+||-++|=++||||+|....+.. . =..+|. +||..+... .+          ..++   .+.++++.|.||--.-.
T Consensus         1 siKivlvGd~~VGKTsli~r~~~~-~-f~~~~~-~Ti~~~~~~-~i----------~~~~---~~v~l~iwDtaGqe~~~   63 (174)
T cd01871           1 AIKCVVVGDGAVGKTCLLISYTTN-A-FPGEYI-PTVFDNYSA-NV----------MVDG---KPVNLGLWDTAGQEDYD   63 (174)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHC-C-CCCCCC-CEEEEEEEE-EE----------EECC---EEEEEEEECCCCCCCCH
T ss_conf             969999899998699999999739-9-999868-837887679-99----------9999---99999998699972406


Q ss_pred             CCCCCCHHHHHHHHHCCCEEEEEECCC
Q ss_conf             224663289999873037478850123
Q gi|254780226|r   82 SKGEGLGNQFLAHIREVDAIIHVLRCF  108 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~aDalihVVdaf  108 (367)
                          .+-.   ...|++|++|.|-|..
T Consensus        64 ----~~~~---~~~~~a~~~ilvydi~   83 (174)
T cd01871          64 ----RLRP---LSYPQTDVFLICFSLV   83 (174)
T ss_pred             ----HHHH---HHHHHCCEEEEEEECC
T ss_conf             ----7889---9874066899998679


No 202
>KOG0075 consensus
Probab=97.09  E-value=0.00043  Score=47.39  Aligned_cols=78  Identities=24%  Similarity=0.383  Sum_probs=50.9

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEE--EECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCC
Q ss_conf             248675288878889999874048987366686744883379--976855587776421865023357999851223543
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGE--VAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRG   80 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~--~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~g   80 (367)
                      |.+-+||+-|+|||||.|.+....   -..|-    =|.+|.  -+|.           ++    .++|.+-|++|    
T Consensus        21 mel~lvGLq~sGKtt~Vnvia~g~---~~edm----iptvGfnmrkvt-----------kg----nvtik~wD~gG----   74 (186)
T KOG0075          21 MELSLVGLQNSGKTTLVNVIARGQ---YLEDM----IPTVGFNMRKVT-----------KG----NVTIKLWDLGG----   74 (186)
T ss_pred             EEEEEEEECCCCCCEEEEEEECCC---CHHHH----CCCCCCEEEEEC-----------CC----CEEEEEEECCC----
T ss_conf             158888532478525888875067---45664----302463268831-----------58----36999983699----


Q ss_pred             CCCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             22246632899998730374788501234
Q gi|254780226|r   81 ASKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        81 A~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      .-.-+.+..+|   -|.++||++||||++
T Consensus        75 q~rfrsmWery---cR~v~aivY~VDaad  100 (186)
T KOG0075          75 QPRFRSMWERY---CRGVSAIVYVVDAAD  100 (186)
T ss_pred             CCCHHHHHHHH---HCCCCEEEEEEECCC
T ss_conf             76088899998---603868999961678


No 203
>KOG2485 consensus
Probab=97.02  E-value=0.0011  Score=44.61  Aligned_cols=66  Identities=27%  Similarity=0.463  Sum_probs=41.8

Q ss_pred             CEEEEEECCCCCHHHHHHHHHC-----CCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCC
Q ss_conf             2486752888788899998740-----48987366686744883379976855587776421865023357999851223
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTR-----TASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGL   77 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~-----~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGL   77 (367)
                      ..+=+||-||||||++.||+-.     ...+.++++|=.|+. -.+.+++-+.          |    +  +.++|.||.
T Consensus       144 ~~vmVvGvPNVGKSsLINa~r~~~Lrk~k~a~vG~~pGVT~~-V~~~iri~~r----------p----~--vy~iDTPGi  206 (335)
T KOG2485         144 YNVMVVGVPNVGKSSLINALRNVHLRKKKAARVGAEPGVTRR-VSERIRISHR----------P----P--VYLIDTPGI  206 (335)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHHCCCEECCCCCCCEEE-EHHHEEECCC----------C----C--EEEECCCCC
T ss_conf             269997389888088999999887653000010688885223-1212574368----------9----6--588668875


Q ss_pred             CCCCCCCC
Q ss_conf             54322246
Q gi|254780226|r   78 VRGASKGE   85 (367)
Q Consensus        78 v~gA~~G~   85 (367)
                      .+-...+.
T Consensus       207 l~P~I~~~  214 (335)
T KOG2485         207 LVPSIVDV  214 (335)
T ss_pred             CCCCCCCH
T ss_conf             79887797


No 204
>CHL00189 infB translation initiation factor 2; Provisional
Probab=96.99  E-value=0.029  Score=35.05  Aligned_cols=112  Identities=22%  Similarity=0.382  Sum_probs=68.6

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCCC
Q ss_conf             86752888788899998740489873666867448833799768555877764218650233579998512235432224
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASKG   84 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~G   84 (367)
                      +-|.|-=.-||+||+-++-.+   .++.-.+.-|-.++|.-.|.-+.      --++     -+|.|+|.||     |  
T Consensus       275 VTIMGHVDHGKTsLLD~iR~t---~Va~~EaGGITQhIGAy~V~~~~------~~~~-----~~ITFlDTPG-----H--  333 (770)
T CHL00189        275 VTILGHVDHGKTTLLDAIRKT---NIAQKEAGGITQKIGAYEVEVPY------KDQN-----QKIVFLDTPG-----H--  333 (770)
T ss_pred             EEEECCCCCCHHHHHHHHHCC---CCCCCCCCCCCCEECEEEEEECC------CCCC-----CEEEEECCCC-----H--
T ss_conf             998577257720378888528---85134567655503529997515------7889-----7589955994-----6--


Q ss_pred             CCCHHHHHHHH-----HCCCEEEEEECCCCCCCC--------CCC----------CCCCC-CCHHHHHHHHHHHHHHHHH
Q ss_conf             66328999987-----303747885012345421--------134----------57767-3215788988887643322
Q gi|254780226|r   85 EGLGNQFLAHI-----REVDAIIHVLRCFKDENI--------IHV----------EGRID-PINDIETIETELMLSDLER  140 (367)
Q Consensus        85 ~GlGN~FL~~i-----r~aDalihVVdaf~~~~v--------~~~----------~g~~D-P~~Di~~i~~EL~l~dle~  140 (367)
                           +-+..+     +-+|..|.||-|  |+.|        .|.          -..+| |-.+.+-+..||.-.  +.
T Consensus       334 -----eAFt~MRaRGA~vTDIvILVVAA--DDGVmPQTiEAI~hakaA~VPiIVAINKiDkp~an~~rVk~eL~e~--gl  404 (770)
T CHL00189        334 -----EAFSSMRSRGANVTDIAILIVAA--DDGVKPQTIEAINHIQAANVPIIVAINKIDKENANIDRVKQELSKY--NL  404 (770)
T ss_pred             -----HHHHHHHHCCCCCCCEEEEEEEC--CCCCCHHHHHHHHHHHHCCCCEEEEEECCCCCCCCHHHHHHHHHHC--CC
T ss_conf             -----88999986278666679999965--7885672799999998769988999877458998857899999986--95


Q ss_pred             HHHHHH
Q ss_conf             245777
Q gi|254780226|r  141 LERLFE  146 (367)
Q Consensus       141 lek~~~  146 (367)
                      +--.|.
T Consensus       405 i~EewG  410 (770)
T CHL00189        405 ISEKWG  410 (770)
T ss_pred             CHHHCC
T ss_conf             522237


No 205
>cd04102 RabL3 RabL3 (Rab-like3) subfamily.  RabL3s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like.  As in other Rab-like proteins, RabL3 lacks a prenylation site at the C-terminus.  The specific function of RabL3 remains unknown.
Probab=96.97  E-value=0.0055  Score=39.89  Aligned_cols=87  Identities=15%  Similarity=0.160  Sum_probs=53.9

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEE--EECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCC
Q ss_conf             248675288878889999874048987366686744883379--976855587776421865023357999851223543
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGE--VAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRG   80 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~--~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~g   80 (367)
                      +||=++|=+.||||+|++.++...  -..+|+ .||-..+.+  ..++.+        ....+.  ..++|-|+||--.-
T Consensus         1 vKIlllGDsgVGKTSL~~~~~~~~--f~~~~~-~TiG~~v~~k~~~~~~~--------~~~~k~--~~l~lWDtaGqery   67 (202)
T cd04102           1 VRVLVVGDSGVGKSSLVHLICKNQ--VLGRPS-WTVGCSVDVKHHTYKEG--------TPEEKT--FFVELWDVGGSESV   67 (202)
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCC--CCCCCC-CCEEEEEEEEEEEECCC--------CCCCCE--EEEEEEECCCCHHH
T ss_conf             989999999989999999998398--888888-85036789999993378--------767838--99999989987757


Q ss_pred             CCCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             22246632899998730374788501234
Q gi|254780226|r   81 ASKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        81 A~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                          +.+-.   .-.|++|++|.|-|.+.
T Consensus        68 ----~sl~~---~yYr~a~gvILVyDvTn   89 (202)
T cd04102          68 ----KSTRA---VFYNQVNGIILVHDLTN   89 (202)
T ss_pred             ----HHHHH---HHHCCCCEEEEEEECCC
T ss_conf             ----76789---97588989999998949


No 206
>cd01874 Cdc42 Cdc42 subfamily.  Cdc42 is an essential GTPase that belongs to the Rho family of Ras-like GTPases.  These proteins act as molecular switches by responding to exogenous and/or endogenous signals and relaying those signals to activate downstream components of a biological pathway.  Cdc42 transduces signals to the actin cytoskeleton to initiate and maintain polarized growth and to mitogen-activated protein morphogenesis. In the budding yeast Saccharomyces cerevisiae, Cdc42 plays an important role in multiple actin-dependent morphogenetic events such as bud emergence, mating-projection formation, and pseudohyphal growth.  In mammalian cells, Cdc42 regulates a variety of actin-dependent events and induces the JNK/SAPK protein kinase cascade, which leads to the activation of transcription factors within the nucleus.  Cdc42 mediates these processes through interactions with a myriad of downstream effectors, whose number and regulation we are just starting to understand.  In addi
Probab=96.94  E-value=0.0082  Score=38.73  Aligned_cols=83  Identities=20%  Similarity=0.288  Sum_probs=52.0

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      ++||-++|-++||||+|....+.. . =..+|. .||..+....           -..+++   ++.+++.|.||--.  
T Consensus         1 svKvv~lGd~~VGKTsli~r~~~~-~-f~~~y~-pti~~~~~~~-----------~~~~~~---~v~l~iwDTaG~e~--   61 (175)
T cd01874           1 TIKCVVVGDGAVGKTCLLISYTTN-K-FPSEYV-PTVFDNYAVT-----------VMIGGE---PYTLGLFDTAGQED--   61 (175)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHC-C-CCCCCC-CCEEEEEEEE-----------EEECCE---EEEEEEEECCCCCC--
T ss_conf             979999899995889999999649-8-999867-8634789999-----------999999---99999998999745--


Q ss_pred             CCCCCCHHHHHHHHHCCCEEEEEECCC
Q ss_conf             224663289999873037478850123
Q gi|254780226|r   82 SKGEGLGNQFLAHIREVDAIIHVLRCF  108 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~aDalihVVdaf  108 (367)
                        =+.+-.   ..+|++|++|.|-|..
T Consensus        62 --~~~l~~---~~~~~~~~~ilvydv~   83 (175)
T cd01874          62 --YDRLRP---LSYPQTDVFLVCFSVV   83 (175)
T ss_pred             --CHHHHH---HHHHCCCEEEEEEECC
T ss_conf             --124658---8771388889996379


No 207
>PRK12312 infB translation initiation factor IF-2; Provisional
Probab=96.91  E-value=0.01  Score=38.11  Aligned_cols=111  Identities=23%  Similarity=0.374  Sum_probs=71.6

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCCC
Q ss_conf             86752888788899998740489873666867448833799768555877764218650233579998512235432224
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASKG   84 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~G   84 (367)
                      +-+.|-=.-|||||+-++..+   .++.-.+.-|-.|+|.-.|+          +++     -+|.|+|.||     |  
T Consensus       120 VtimGHVDHGKTsLLD~iR~t---~V~~~EaGGITQhIGA~~v~----------~~~-----~~itFiDTPG-----H--  174 (610)
T PRK12312        120 VTIMGHVDHGKTTLLDTIRKT---NVVASEAGGITQHIGAYQVE----------YQG-----KKITFIDTPG-----H--  174 (610)
T ss_pred             EEEECCCCCCHHHHHHHHHCC---CCCCCCCCCCCCEECEEEEE----------ECC-----CEEEEECCCC-----H--
T ss_conf             999677257722588998548---64134677664400449998----------679-----7689972896-----7--


Q ss_pred             CCCHHHHHHHHH-----CCCEEEEEECCCCC------CCCCCC----------CCCCC-CCHHHHHHHHHHHHHHHHHHH
Q ss_conf             663289999873-----03747885012345------421134----------57767-321578898888764332224
Q gi|254780226|r   85 EGLGNQFLAHIR-----EVDAIIHVLRCFKD------ENIIHV----------EGRID-PINDIETIETELMLSDLERLE  142 (367)
Q Consensus        85 ~GlGN~FL~~ir-----~aDalihVVdaf~~------~~v~~~----------~g~~D-P~~Di~~i~~EL~l~dle~le  142 (367)
                           +-.+.+|     -+|..|.||+|=+.      +.+.|.          -+.+| |-.|.+-+..||.-  ++.+-
T Consensus       175 -----eAFt~mR~RGa~vtDI~iLVVaaddGv~pQTiEaI~~ak~a~vpiiVAiNKiDkp~a~~~~v~~~L~~--~g~~~  247 (610)
T PRK12312        175 -----EAFTEMRARGAKVTDIVILVVAADDGVKPQTEEAIDHAKAANVPIIVFVNKMDKPNANPDRIKNELSK--YDLVP  247 (610)
T ss_pred             -----HHHHHHHHCCCCCCCEEEEEEECCCCCCHHHHHHHHHHHHCCCCEEEEECCCCCCCCCHHHHHHHHHH--HCCCH
T ss_conf             -----98999997077654579999975789774269999999975998899850446788987899999987--07667


Q ss_pred             HHHHH
Q ss_conf             57777
Q gi|254780226|r  143 RLFEK  147 (367)
Q Consensus       143 k~~~k  147 (367)
                      -.|..
T Consensus       248 E~~GG  252 (610)
T PRK12312        248 EEWGG  252 (610)
T ss_pred             HHHCC
T ss_conf             88579


No 208
>smart00176 RAN Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases. Ran is involved in the active transport of proteins through nuclear pores.
Probab=96.86  E-value=0.014  Score=37.24  Aligned_cols=140  Identities=17%  Similarity=0.188  Sum_probs=78.1

Q ss_pred             EECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCCCCCC
Q ss_conf             52888788899998740489873666867448833799768555877764218650233579998512235432224663
Q gi|254780226|r    8 IGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASKGEGL   87 (367)
Q Consensus         8 vG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~G~Gl   87 (367)
                      ||=++||||||.+..... .= ..+|     .|.+|+-..+        ..+... -..+++++-|.||--    +=++|
T Consensus         1 vGD~gVGKTsli~R~~~~-~F-~~~y-----~pTiGvd~~~--------~~~~~~-~~~i~l~iWDTAGqE----~f~sl   60 (200)
T smart00176        1 VGDGGTGKTTFVKRHLTG-EF-EKKY-----VATLGVEVHP--------LVFHTN-RGPIRFNVWDTAGQE----KFGGL   60 (200)
T ss_pred             CCCCCCCHHHHHHHHHCC-CC-CCCC-----CCCEEEEEEE--------EEEEEC-CEEEEEEEEECCCCC----CCCCC
T ss_conf             989887899999999409-99-9997-----8871489899--------999989-989999999898870----00110


Q ss_pred             HHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Q ss_conf             28999987303747885012345421134577673215788988887643322245777778752032046777899999
Q gi|254780226|r   88 GNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLLQSIIS  167 (367)
Q Consensus        88 GN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~~~~l~  167 (367)
                      -..   ..|+|++.|.|-|.+.-+.       +                  +.+. .|                      
T Consensus        61 ~~~---yyr~a~~~IlvfDvt~~~S-------F------------------~~l~-~W----------------------   89 (200)
T smart00176       61 RDG---YYIQGQCAIIMFDVTARVT-------Y------------------KNVP-NW----------------------   89 (200)
T ss_pred             CHH---HCCCCCEEEEEEECCCHHH-------H------------------HHHH-HH----------------------
T ss_conf             265---5057878899963587789-------9------------------9899-99----------------------


Q ss_pred             HHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCCCHHHH
Q ss_conf             8899887587410344313267776210235764101001003430111010134678778864369840332100246
Q gi|254780226|r  168 SSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIISAAIEA  246 (367)
Q Consensus       168 ~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~isa~~E~  246 (367)
                                         -.+.....      ..-|+++|+||.|....  ....+. ..++.+++..++-+||+...
T Consensus        90 -------------------~~~l~~~~------~~ipiiLvGNK~DL~~r--~V~~e~-~~~a~~~~~~y~EtSAKt~~  140 (200)
T smart00176       90 -------------------HRDLVRVC------ENIPIVLCGNKVDVKDR--KVKAKS-ITFHRKKNLQYYDISAKSNY  140 (200)
T ss_pred             -------------------HHHHHHHC------CCCCEEEEEECCCCCCC--CCCHHH-HHHHHHCCCCEEEEECCCCC
T ss_conf             -------------------99999857------99988999988757404--365999-99999879978983004696


No 209
>cd04130 Wrch_1 Wrch-1 subfamily.  Wrch-1 (Wnt-1 responsive Cdc42 homolog) is a Rho family GTPase that shares significant sequence and functional similarity with Cdc42.  Wrch-1 was first identified in mouse mammary epithelial cells, where its transcription is upregulated in Wnt-1 transformation.  Wrch-1 contains N- and C-terminal extensions relative to cdc42, suggesting potential differences in cellular localization and function.  The Wrch-1 N-terminal extension contains putative SH3 domain-binding motifs and has been shown to bind the SH3 domain-containing protein Grb2, which increases the level of active Wrch-1 in cells.  Unlike Cdc42, which localizes to the cytosol and perinuclear membranes, Wrch-1 localizes extensively with the plasma membrane and endosomes.  The membrane association, localization, and biological activity of Wrch-1 indicate an atypical model of regulation distinct from other Rho family GTPases.  Most Rho proteins contain a lipid modification site at the C-terminus, 
Probab=96.85  E-value=0.011  Score=37.96  Aligned_cols=82  Identities=21%  Similarity=0.340  Sum_probs=50.6

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337997685558777642186502335799985122354322
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      +||-++|-++||||+|....... . =..+|.     |..+..+-..      . ..++   .+.++++.|.||--    
T Consensus         1 iKvvlvGd~~VGKTsli~r~~~~-~-F~~~y~-----pT~~~~~~~~------i-~~~~---~~v~l~iwDtaG~e----   59 (173)
T cd04130           1 LKCVLVGDGAVGKTSLIVSYTTN-G-YPTEYV-----PTAFDNFSVV------V-LVDG---KPVRLQLCDTAGQD----   59 (173)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHC-C-CCCCCC-----CCEEEEEEEE------E-EECC---EEEEEEEEECCCCC----
T ss_conf             98999998997889999999619-9-999857-----8358999999------9-9999---99999999899873----


Q ss_pred             CCCCCHHHHHHHHHCCCEEEEEECCC
Q ss_conf             24663289999873037478850123
Q gi|254780226|r   83 KGEGLGNQFLAHIREVDAIIHVLRCF  108 (367)
Q Consensus        83 ~G~GlGN~FL~~ir~aDalihVVdaf  108 (367)
                      +-..+-..+   .|++|++|.|-|..
T Consensus        60 ~~~~l~~~~---~~~a~~~ilvydv~   82 (173)
T cd04130          60 EFDKLRPLC---YPDTDVFLLCFSVV   82 (173)
T ss_pred             CCCHHHHHH---HCCCCEEEEEEECC
T ss_conf             443456766---13787899999659


No 210
>PRK05306 infB translation initiation factor IF-2; Validated
Probab=96.85  E-value=0.041  Score=34.05  Aligned_cols=110  Identities=22%  Similarity=0.407  Sum_probs=68.9

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCCC
Q ss_conf             86752888788899998740489873666867448833799768555877764218650233579998512235432224
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASKG   84 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~G   84 (367)
                      +-+.|-=.-||+||+-++-.+   .++...+.-|--++|...|.-         .++     -.|.|+|.||     |+ 
T Consensus       344 vt~mghvdhgkt~lld~~r~~---~v~~~e~ggitq~iga~~v~~---------~~~-----~~itf~dtpg-----h~-  400 (839)
T PRK05306        344 VTIMGHVDHGKTSLLDAIRKT---KVAAGEAGGITQHIGAYQVET---------ENG-----KKITFLDTPG-----HE-  400 (839)
T ss_pred             EEEECCCCCCHHHHHHHHHCC---CCCCCCCCCCCCEEEEEEEEE---------CCC-----CEEEEECCCC-----HH-
T ss_conf             988577467731489998628---753556787552223499995---------699-----8799855885-----58-


Q ss_pred             CCCHHHHHHHH-----HCCCEEEEEECCCCCCCC--------CCCC----------CCCC-CCHHHHHHHHHHHHHHHHH
Q ss_conf             66328999987-----303747885012345421--------1345----------7767-3215788988887643322
Q gi|254780226|r   85 EGLGNQFLAHI-----REVDAIIHVLRCFKDENI--------IHVE----------GRID-PINDIETIETELMLSDLER  140 (367)
Q Consensus        85 ~GlGN~FL~~i-----r~aDalihVVdaf~~~~v--------~~~~----------g~~D-P~~Di~~i~~EL~l~dle~  140 (367)
                           .| ..+     .=+|..|.||-|  |+.+        .|..          +.+| |--|.+-+..||.-  ++.
T Consensus       401 -----af-~~mr~rga~~tdi~ilvvaa--ddgv~pqt~eai~~~~~a~vp~ivaink~d~~~a~~~~v~~~l~~--~~~  470 (839)
T PRK05306        401 -----AF-TAMRARGAQVTDIVVLVVAA--DDGVMPQTIEAINHAKAAGVPIIVAINKIDKPGANPDRVKQELTE--YGL  470 (839)
T ss_pred             -----HH-HHHHHCCCCCCCEEEEEEEC--CCCCCHHHHHHHHHHHHCCCCEEEEEECCCCCCCCHHHHHHHHHH--CCC
T ss_conf             -----89-99986357654369999977--777567789999999974998899974046788988999999998--498


Q ss_pred             HHHHHHH
Q ss_conf             2457777
Q gi|254780226|r  141 LERLFEK  147 (367)
Q Consensus       141 lek~~~k  147 (367)
                      +--.|.-
T Consensus       471 ~~e~~gg  477 (839)
T PRK05306        471 VPEEWGG  477 (839)
T ss_pred             CHHHCCC
T ss_conf             6454289


No 211
>cd04126 Rab20 Rab20 subfamily.  Rab20 is one of several Rab proteins that appear to be restricted in expression to the apical domain of murine polarized epithelial cells.  It is expressed on the apical side of polarized kidney tubule and intestinal epithelial cells, and in non-polarized cells. It also localizes to vesico-tubular structures below the apical brush border of renal proximal tubule cells and in the apical region of duodenal epithelial cells.  Rab20 has also been shown to colocalize with vacuolar H+-ATPases (V-ATPases) in mouse kidney cells, suggesting a role in the regulation of V-ATPase traffic in specific portions of the nephron.  It was also shown to be one of several proteins whose expression is upregulated in human myelodysplastic syndrome (MDS) patients. 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-bo
Probab=96.81  E-value=0.01  Score=38.03  Aligned_cols=79  Identities=25%  Similarity=0.357  Sum_probs=54.2

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337997685558777642186502335799985122354322
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      +||-++|=++||||+|.+..+...      |+  .-.|.+|....             .++..+.++++.|.||    ..
T Consensus         1 lKivllGd~~VGKTsl~~rf~~~~------F~--~~~~Tig~~~~-------------~k~~~~~~l~IwDTaG----qE   55 (220)
T cd04126           1 LKVVLLGDMNVGKTSLLHRYMERR------FK--DTVSTVGGAFY-------------LKQWGPYNISIWDTAG----RE   55 (220)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHCC------CC--CCCCCCCEEEE-------------EEECCEEEEEEEECCC----CC
T ss_conf             989999999988999999997298------99--98887136899-------------9876478899994798----62


Q ss_pred             CCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             246632899998730374788501234
Q gi|254780226|r   83 KGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        83 ~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      +=+.|...|   .|+|+++|.|-|...
T Consensus        56 ~f~sl~~~y---~r~a~~~ilvyDit~   79 (220)
T cd04126          56 QFHGLGSMY---CRGAAAVILTYDVSN   79 (220)
T ss_pred             CCCCCHHHH---HCCCCEEEEEEECCC
T ss_conf             243326888---567988999997989


No 212
>cd04132 Rho4_like Rho4-like subfamily.  Rho4 is a GTPase that controls septum degradation by regulating secretion of Eng1 or Agn1 during cytokinesis.  Rho4 also plays a role in cell morphogenesis.  Rho4 regulates septation and cell morphology by controlling the actin cytoskeleton and cytoplasmic microtubules.  The localization of Rho4 is modulated by Rdi1, which may function as a GDI, and by Rga9, which is believed to function as a GAP.  In S. pombe, both Rho4 deletion and Rho4 overexpression result in a defective cell wall, suggesting a role for Rho4 in maintaining cell wall integrity.  Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid.  Lipid binding is essential for membrane attachment, a key feature of most Rho proteins.
Probab=96.77  E-value=0.013  Score=37.48  Aligned_cols=83  Identities=18%  Similarity=0.140  Sum_probs=50.5

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      ||-++|-++||||+|++..+...  =..+|. .|    +|.-+....      ...++   ...++++.|.||--    +
T Consensus         2 KivlvGd~~VGKTsli~r~~~~~--F~~~~~-pT----i~~~~~~~~------~~~~~---~~v~l~iwDtaG~e----~   61 (187)
T cd04132           2 KIVVVGDGGCGKTCLLIVYSQGK--FPEEYV-PT----VFENYVTNI------QGPNG---KIIELALWDTAGQE----E   61 (187)
T ss_pred             EEEEECCCCCCHHHHHHHHHHCC--CCCCCC-CC----EEEEEEEEE------EEECC---EEEEEEEEECCCCC----C
T ss_conf             89999949976999999996398--999758-96----647999999------95499---89999999699971----1


Q ss_pred             CCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             46632899998730374788501234
Q gi|254780226|r   84 GEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        84 G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      -..+...+   .|+||++|.|-|...
T Consensus        62 ~~~l~~~~---~~~a~~~ilvydit~   84 (187)
T cd04132          62 YDRLRPLS---YPDVDVLLICYAVDN   84 (187)
T ss_pred             CCCCHHHH---HHHCCEEEEEECCCC
T ss_conf             05343445---300348889503687


No 213
>KOG0074 consensus
Probab=96.72  E-value=0.011  Score=37.76  Aligned_cols=78  Identities=23%  Similarity=0.381  Sum_probs=46.5

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEE--EEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCC
Q ss_conf             24867528887888999987404898736668674488337--9976855587776421865023357999851223543
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSG--EVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRG   80 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g--~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~g   80 (367)
                      ++|++.|+-|+||+||+..|. +.++  .+     +-|.-|  +..|.          +.+  .  -.+.+-||.|    
T Consensus        18 irilllGldnAGKTT~LKqL~-sED~--~h-----ltpT~GFn~k~v~----------~~g--~--f~LnvwDiGG----   71 (185)
T KOG0074          18 IRILLLGLDNAGKTTFLKQLK-SEDP--RH-----LTPTNGFNTKKVE----------YDG--T--FHLNVWDIGG----   71 (185)
T ss_pred             EEEEEEECCCCCCHHHHHHHC-CCCH--HH-----CCCCCCCCEEEEE----------ECC--C--EEEEEEECCC----
T ss_conf             789997227776130888871-3783--33-----1566885247876----------247--0--7888885278----


Q ss_pred             CCCCCCCHHHHHHHHHCCCEEEEEECCCCC
Q ss_conf             222466328999987303747885012345
Q gi|254780226|r   81 ASKGEGLGNQFLAHIREVDAIIHVLRCFKD  110 (367)
Q Consensus        81 A~~G~GlGN~FL~~ir~aDalihVVdaf~~  110 (367)
                      ...=++   -.=+--.+.|.||+|+| |.|
T Consensus        72 qr~IRp---yWsNYyenvd~lIyVID-S~D   97 (185)
T KOG0074          72 QRGIRP---YWSNYYENVDGLIYVID-STD   97 (185)
T ss_pred             CCCCCH---HHHHHHHCCCEEEEEEE-CCC
T ss_conf             665544---56655530554899984-773


No 214
>cd01875 RhoG RhoG subfamily.  RhoG is a GTPase with high sequence similarity to members of the Rac subfamily, including the regions involved in effector recognition and binding.  However, RhoG does not bind to known Rac1 and Cdc42 effectors, including proteins containing a Cdc42/Rac interacting binding (CRIB) motif.  Instead, RhoG interacts directly with Elmo, an upstream regulator of Rac1, in a GTP-dependent manner and forms a ternary complex with Dock180 to induce activation of Rac1.  The RhoG-Elmo-Dock180 pathway is required for activation of Rac1 and cell spreading mediated by integrin, as well as for neurite outgrowth induced by nerve growth factor.  Thus RhoG activates Rac1 through Elmo and Dock180 to control cell morphology.  RhoG has also been shown to play a role in caveolar trafficking and has a novel role in signaling the neutrophil respiratory burst stimulated by G protein-coupled receptor (GPCR) agonists.  Most Rho proteins contain a lipid modification site at the C-termin
Probab=96.66  E-value=0.019  Score=36.24  Aligned_cols=83  Identities=19%  Similarity=0.274  Sum_probs=50.8

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      .+||-++|=+.||||+|....+...  =..+|     .|.++..+...       -..+++   ++.+++.|.||--.- 
T Consensus         3 ~~KivlvGd~~VGKTsli~r~~~~~--F~~~y-----~pti~~~~~~~-------~~i~~~---~v~l~iwDtaG~e~~-   64 (191)
T cd01875           3 SIKCVVVGDGAVGKTCLLICYTTNA--FPKEY-----IPTVFDNYSAQ-------TAVDGR---TVSLNLWDTAGQEEY-   64 (191)
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHCC--CCCCC-----CCCCCEEEEEE-------EEECCE---EEEEEEEECCCCCCH-
T ss_conf             1899999999989999999997299--99864-----66210004678-------999999---999999858887003-


Q ss_pred             CCCCCCHHHHHHHHHCCCEEEEEECCC
Q ss_conf             224663289999873037478850123
Q gi|254780226|r   82 SKGEGLGNQFLAHIREVDAIIHVLRCF  108 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~aDalihVVdaf  108 (367)
                         +.+-.   ...|+||++|.|-|.+
T Consensus        65 ---~~~~~---~~~~~a~~~ilvfdvt   85 (191)
T cd01875          65 ---DRLRT---LSYPQTNVFIICFSIA   85 (191)
T ss_pred             ---HHHHH---HHHCCCCEEEEEEECC
T ss_conf             ---56778---7744786899998579


No 215
>KOG0070 consensus
Probab=96.65  E-value=0.0067  Score=39.34  Aligned_cols=80  Identities=20%  Similarity=0.266  Sum_probs=52.9

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      .|+|=++|+-|+||||+..-+-.   .|+-+- -.||--|+-.+.++                 +.++++-|+.|-    
T Consensus        17 e~~IlmvGLD~AGKTTILyklk~---~E~vtt-vPTiGfnVE~v~yk-----------------n~~f~vWDvGGq----   71 (181)
T KOG0070          17 EMRILMVGLDAAGKTTILYKLKL---GEIVTT-VPTIGFNVETVEYK-----------------NISFTVWDVGGQ----   71 (181)
T ss_pred             EEEEEEEECCCCCCCEEEEECCC---CCCCCC-CCCCCCCEEEEEEC-----------------CEEEEEEECCCC----
T ss_conf             67999996168986015675025---874147-78645313699986-----------------618999815887----


Q ss_pred             CCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             2246632899998730374788501234
Q gi|254780226|r   82 SKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      .+   +..-.-.-.+++++||.|||.++
T Consensus        72 ~k---~R~lW~~Y~~nt~~lIfVvDS~D   96 (181)
T KOG0070          72 EK---LRPLWKHYFQNTQGLIFVVDSSD   96 (181)
T ss_pred             CC---CCCCHHHHCCCCCEEEEEEECCC
T ss_conf             35---45313532037727999981773


No 216
>KOG0078 consensus
Probab=96.62  E-value=0.027  Score=35.23  Aligned_cols=144  Identities=20%  Similarity=0.225  Sum_probs=89.7

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEE------EECCCHHHHHHHHHCCCCEEEEEEEEEEECC
Q ss_conf             8248675288878889999874048987366686744883379------9768555877764218650233579998512
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGE------VAVPDPRMHKLAEIAESKDLVPTRMSFVDIA   75 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~------~~v~d~~~~~l~~~~~~~~~~p~~i~~iDva   75 (367)
                      .+|+=++|-++||||.+.-.....  +  -+.+|.+   .+|+      +.++            +   ..+.+|+.|.|
T Consensus        12 ~~kvlliGDs~vGKt~~l~rf~d~--~--f~~~~~s---TiGIDFk~kti~l~------------g---~~i~lQiWDta   69 (207)
T KOG0078          12 LFKLLLIGDSGVGKTCLLLRFSDD--S--FNTSFIS---TIGIDFKIKTIELD------------G---KKIKLQIWDTA   69 (207)
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHC--C--CCCCCCC---EEEEEEEEEEEEEC------------C---EEEEEEEEECC
T ss_conf             899999778987655766654406--6--7677651---58788788899838------------9---08999999724


Q ss_pred             CCCCCCCCCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             23543222466328999987303747885012345421134577673215788988887643322245777778752032
Q gi|254780226|r   76 GLVRGASKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHK  155 (367)
Q Consensus        76 GLv~gA~~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~  155 (367)
                      |      +.++ .+-+=+-.|.|+.++.|+|......                         .+.+.+ |-+        
T Consensus        70 G------Qerf-~ti~~sYyrgA~gi~LvyDitne~S-------------------------feni~~-W~~--------  108 (207)
T KOG0078          70 G------QERF-RTITTAYYRGAMGILLVYDITNEKS-------------------------FENIRN-WIK--------  108 (207)
T ss_pred             C------CHHH-HHHHHHHHHHCCEEEEEEECCCHHH-------------------------HHHHHH-HHH--------
T ss_conf             3------0567-8899999865482499998452577-------------------------777999-999--------


Q ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCC
Q ss_conf             04677789999988998875874103443132677762102357641010010034301110101346787788643698
Q gi|254780226|r  156 SEEIVLLQSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNA  235 (367)
Q Consensus       156 ~~~~~~~~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~  235 (367)
                                      .+++..         ++             .=|.++|.||+|.... .....++-+++|.+.+.
T Consensus       109 ----------------~I~e~a---------~~-------------~v~~~LvGNK~D~~~~-R~V~~e~ge~lA~e~G~  149 (207)
T KOG0078         109 ----------------NIDEHA---------SD-------------DVVKILVGNKCDLEEK-RQVSKERGEALAREYGI  149 (207)
T ss_pred             ----------------HHHHHC---------CC-------------CCCEEEEECCCCCCCC-CCCCHHHHHHHHHHHCC
T ss_conf             ----------------998637---------88-------------8748985114121013-33567999999998498


Q ss_pred             CCCCCCCHHHHH
Q ss_conf             403321002466
Q gi|254780226|r  236 EMIIISAAIEAE  247 (367)
Q Consensus       236 ~~i~isa~~E~e  247 (367)
                      .+.-.||+....
T Consensus       150 ~F~EtSAk~~~N  161 (207)
T KOG0078         150 KFFETSAKTNFN  161 (207)
T ss_pred             EEEECCCCCCCC
T ss_conf             279713367998


No 217
>pfam04670 Gtr1_RagA Gtr1/RagA G protein conserved region. GTR1 was first identified in S. cerevisiae as a suppressor of a mutation in RCC1. Biochemical analysis revealed that Gtr1 is in fact a G protein of the Ras family. The RagA/B proteins are the human homologues of Gtr1. Included in this family is the human Rag C, a novel protein that has been shown to interact with RagA/B.
Probab=96.49  E-value=0.016  Score=36.70  Aligned_cols=82  Identities=20%  Similarity=0.175  Sum_probs=51.2

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCC-CCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             4867528887888999987404898-736668674488337997685558777642186502335799985122354322
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASA-QAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~-~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      |+=|.|++.+|||+.=+.+-.+-.+ ++. |==+|++++...++...              .  ..+++.|.||=.    
T Consensus         1 KiLLMG~~~sGKTSi~~vIF~~~~p~dT~-~L~~T~~ve~~~v~~~~--------------~--l~l~iwD~pGq~----   59 (230)
T pfam04670         1 KVLLMGLRGSGKSSMRSIIFSNYSPRDTL-RLGATIDVEQSHVRFLG--------------N--LTLNLWDCPGQD----   59 (230)
T ss_pred             CEEEECCCCCCHHHHHHHHHCCCCHHHHC-CCCCCCCEEEEEEECCC--------------C--CEEEEEECCCCH----
T ss_conf             97875689998777699986799821412-02577776778774168--------------7--368999769835----


Q ss_pred             CCCCCHHHH----HHHHHCCCEEEEEECCC
Q ss_conf             246632899----99873037478850123
Q gi|254780226|r   83 KGEGLGNQF----LAHIREVDAIIHVLRCF  108 (367)
Q Consensus        83 ~G~GlGN~F----L~~ir~aDalihVVdaf  108 (367)
                        .=+.|.|    =.-.++|.|||+|+|+-
T Consensus        60 --~f~e~~~~~~~e~if~~v~~lIyV~D~q   87 (230)
T pfam04670        60 --DFMENYLTRQKEHIFSNVGVLIYVFDVE   87 (230)
T ss_pred             --HHHHHHCCCCHHHHHHCCCEEEEEEECC
T ss_conf             --3544120022354764478899999688


No 218
>TIGR02528 EutP ethanolamine utilization protein, EutP; InterPro: IPR012381   Members of this family function in ethanolamine  and propanediol  degradation pathways. Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively.  The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems.  Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose , . More than 10f the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect , . The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella , , . Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 biogenic amine metabolic process.
Probab=96.45  E-value=0.0094  Score=38.32  Aligned_cols=77  Identities=19%  Similarity=0.209  Sum_probs=51.1

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      ||-+||..++||||||++|-+.   ++. |-=|-     .+-+-                  +  =+.||.||   -==+
T Consensus         2 r~~f~G~~gCGKTTL~q~L~g~---~~~-YKKTQ-----AvE~~------------------~--k~~IDTPG---EY~e   49 (144)
T TIGR02528         2 RIMFIGSVGCGKTTLTQALQGE---EIK-YKKTQ-----AVEYK------------------D--KEAIDTPG---EYVE   49 (144)
T ss_pred             EEEEEECCCCCHHHHHHHCCCC---CCC-EEEEE-----EEEEC------------------C--CCCCCCCC---CCCC
T ss_conf             1788715888744354311687---321-02334-----45425------------------8--88655985---0015


Q ss_pred             CCCCHHHHHHHHHCCCEEEEEECCCCCCC
Q ss_conf             46632899998730374788501234542
Q gi|254780226|r   84 GEGLGNQFLAHIREVDAIIHVLRCFKDEN  112 (367)
Q Consensus        84 G~GlGN~FL~~ir~aDalihVVdaf~~~~  112 (367)
                      .|++=...|--.++||.|+.|-+|-+..+
T Consensus        50 nr~~Y~AL~vtaaDAd~i~lV~~a~~~~~   78 (144)
T TIGR02528        50 NRRYYSALIVTAADADVIALVQSATDEES   78 (144)
T ss_pred             CCCHHHHHHHHHHCCEEEEEEECCCCCCC
T ss_conf             75237888888721023667735776422


No 219
>pfam04548 AIG1 AIG1 family. Arabidopsis protein AIG1 appears to be involved in plant resistance to bacteria.
Probab=96.44  E-value=0.026  Score=35.35  Aligned_cols=83  Identities=17%  Similarity=0.150  Sum_probs=48.0

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCC--CCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCC
Q ss_conf             248675288878889999874048987366686--744883379976855587776421865023357999851223543
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPF--CTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRG   80 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypF--tTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~g   80 (367)
                      |+|=|+|++.+|||+.=|.+-|- .+=....+.  .|-....+...+            ++     -+|.++|.|||-..
T Consensus         1 LrivLlGktG~GKSstgNtILG~-~~F~s~~~~~~vT~~c~~~~~~~------------~g-----r~v~ViDTPgl~~~   62 (200)
T pfam04548         1 LRIVLVGKTGNGKSATGNSILGR-KAFESKLRAQGVTKTCQLVSRTW------------DG-----RIINVIDTPGLFDL   62 (200)
T ss_pred             CEEEEECCCCCCHHHHHHHHCCC-CCCCCCCCCCCCCEEEEEEEEEE------------CC-----EEEEEEECCCCCCC
T ss_conf             98999799998436557661797-53357898888741368999998------------99-----68999978663576


Q ss_pred             CCCCCCCHHHHHHHHHC--------CCEEEEEECC
Q ss_conf             22246632899998730--------3747885012
Q gi|254780226|r   81 ASKGEGLGNQFLAHIRE--------VDAIIHVLRC  107 (367)
Q Consensus        81 A~~G~GlGN~FL~~ir~--------aDalihVVda  107 (367)
                      ....    .+....|.+        -+|++.|++.
T Consensus        63 ~~~~----~~~~~ei~~~~~l~~pGpHa~LLVi~~   93 (200)
T pfam04548        63 SVSN----DFISKEIIRCLLLAEPGPHAVLLVLSL   93 (200)
T ss_pred             CCCH----HHHHHHHHHHHHHCCCCCCEEEEEEEC
T ss_conf             7786----999999999998558998579999866


No 220
>PRK11300 livG leucine/isoleucine/valine transporter ATP-binding subunit; Provisional
Probab=96.40  E-value=0.077  Score=32.18  Aligned_cols=32  Identities=34%  Similarity=0.608  Sum_probs=25.5

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             86752888788899998740489873666867448833799768
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      +||+|.-.+||||++++++|..            .|..|.+.+.
T Consensus        34 ~~liGpnGaGKSTL~~~i~Gl~------------~p~~G~I~~~   65 (255)
T PRK11300         34 VSLIGPNGAGKTTVFNCLTGFY------------KPTGGTILLD   65 (255)
T ss_pred             EEEECCCCCCHHHHHHHHHCCC------------CCCCEEEEEC
T ss_conf             9999899964999999996798------------8986089999


No 221
>cd04167 Snu114p Snu114p subfamily.  Snu114p is one of several proteins that make up the U5 small nuclear ribonucleoprotein (snRNP) particle.  U5 is a component of the spliceosome, which catalyzes the splicing of pre-mRNA to remove introns.  Snu114p is homologous to EF-2, but typically contains an additional N-terminal domain not found in Ef-2.  This protein is part of the GTP translation factor family and the Ras superfamily, characterized by five G-box motifs.
Probab=96.37  E-value=0.016  Score=36.78  Aligned_cols=94  Identities=16%  Similarity=0.229  Sum_probs=52.5

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHH---H-HH-------HHCCCCEEEEEEEEEE
Q ss_conf             48675288878889999874048987366686744883379976855587---7-76-------4218650233579998
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMH---K-LA-------EIAESKDLVPTRMSFV   72 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~---~-l~-------~~~~~~~~~p~~i~~i   72 (367)
                      -++++|---.|||||..+|...... +..  ..  ....+...+-|.+.+   + .+       -.+...+...-.+.++
T Consensus         2 NvaiigHvdhGKTTL~d~Ll~~t~~-~~~--~~--~~~~~~~~~~D~~~~E~eRgiTI~s~~~sl~~~~~~~k~~~inlI   76 (213)
T cd04167           2 NVAIAGHLHHGKTSLLDMLIEQTHD-LTP--SG--KDGWKPLRYTDIRKDEQERGISIKSSPISLVLPDSKGKSYLFNII   76 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH-HHH--HC--CCCCCEEEEECCCHHHHHHCCCEECCEEEEEEECCCCCEEEEEEE
T ss_conf             5999827898989999999997344-555--40--444211357516466542035586145999982566750578778


Q ss_pred             ECCCCCCCCCCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             5122354322246632899998730374788501234
Q gi|254780226|r   73 DIAGLVRGASKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        73 DvaGLv~gA~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      |.||-+-       .+.+....+|-||+.+.||||.+
T Consensus        77 DTPGH~d-------F~~ev~~al~~~DgailVVDa~e  106 (213)
T cd04167          77 DTPGHVN-------FMDEVAAALRLSDGVVLVVDVVE  106 (213)
T ss_pred             ECCCCHH-------HHHHHHHHHHHCCEEEEEEECCC
T ss_conf             8987241-------79999988863776799998788


No 222
>PRK13695 putative NTPase; Provisional
Probab=96.30  E-value=0.0034  Score=41.33  Aligned_cols=24  Identities=38%  Similarity=0.729  Sum_probs=22.2

Q ss_pred             CCCEEEEEECCCCCHHHHHHHHHC
Q ss_conf             982486752888788899998740
Q gi|254780226|r    1 MGFKCGIIGLPNVGKSTLFNALTR   24 (367)
Q Consensus         1 m~~kiGlvG~pn~GKST~f~alT~   24 (367)
                      |.|||+|.|.|.+||||++..+..
T Consensus         2 ~~~kI~iTG~PGvGKTTli~Kv~~   25 (174)
T PRK13695          2 AALRIGITGMPGVGKTTLVLKIAE   25 (174)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
T ss_conf             842999878999889999999999


No 223
>PRK05433 GTP-binding protein LepA; Provisional
Probab=96.29  E-value=0.039  Score=34.16  Aligned_cols=109  Identities=22%  Similarity=0.281  Sum_probs=61.6

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCC---------------CCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEE
Q ss_conf             8675288878889999874048987366686---------------7448833799768555877764218650233579
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPF---------------CTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRM   69 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypF---------------tTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i   69 (367)
                      ++|+.-=-.||||+-..+-.... -+...-.               -||..+...+            .|+.+.-..-.+
T Consensus        10 f~IiAHIDhGKSTLaDrlL~~tg-~i~~~~~~~q~lD~m~~ErERGITIka~~v~~------------~y~~~~g~~y~l   76 (601)
T PRK05433         10 FSIIAHIDHGKSTLADRLIELTG-TLSEREMKAQVLDSMDLERERGITIKAQAVRL------------NYKAKDGETYQL   76 (601)
T ss_pred             EEEEEECCCCHHHHHHHHHHHCC-CCCCCCCHHHCCCCHHHHHHCCCEEEEEEEEE------------EEECCCCCEEEE
T ss_conf             89999437888889999999709-97744323331454155765583697867999------------988489967999


Q ss_pred             EEEECCCCCCCCCCCCCCHHHHHHHHHCCCEEEEEECCCCCCCC----------------CCCCCCCC-CCHHHHHHHHH
Q ss_conf             99851223543222466328999987303747885012345421----------------13457767-32157889888
Q gi|254780226|r   70 SFVDIAGLVRGASKGEGLGNQFLAHIREVDAIIHVLRCFKDENI----------------IHVEGRID-PINDIETIETE  132 (367)
Q Consensus        70 ~~iDvaGLv~gA~~G~GlGN~FL~~ir~aDalihVVdaf~~~~v----------------~~~~g~~D-P~~Di~~i~~E  132 (367)
                      .|+|.||=|--.+       ++=.-+|-||.-+.||||+..-..                ..+-+.+| |-.|++.+..|
T Consensus        77 NLIDTPGHVDF~~-------EVsRSL~aceGalLlVDa~qGVqaQT~an~~~A~~~~L~iIpviNKIDlp~Ad~e~v~~q  149 (601)
T PRK05433         77 NLIDTPGHVDFSY-------EVSRSLAACEGALLVVDASQGVEAQTLANVYLALENDLEIIPVLNKIDLPAADPERVKQE  149 (601)
T ss_pred             EEECCCCCCCCCE-------EEEEEHHHCCCEEEEEECCCCCCCHHHHHHHHHHHCCCCEEEEEECCCCCCCCHHHHHHH
T ss_conf             9854898566450-------455603340725999976878560069999999987996577786146888998999999


Q ss_pred             H
Q ss_conf             8
Q gi|254780226|r  133 L  133 (367)
Q Consensus       133 L  133 (367)
                      |
T Consensus       150 i  150 (601)
T PRK05433        150 I  150 (601)
T ss_pred             H
T ss_conf             9


No 224
>PRK04000 translation initiation factor IF-2 subunit gamma; Validated
Probab=96.29  E-value=0.015  Score=37.03  Aligned_cols=94  Identities=26%  Similarity=0.344  Sum_probs=51.1

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCC-----CCCCCCCEEEEEC-----CC-HHHH------HHHHHCCCCEEE
Q ss_conf             24867528887888999987404898736668-----6744883379976-----85-5587------776421865023
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYP-----FCTIEPNSGEVAV-----PD-PRMH------KLAEIAESKDLV   65 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~yp-----FtTi~pn~g~~~v-----~d-~~~~------~l~~~~~~~~~~   65 (367)
                      +.||.+|-=-.|||||-.|||+. ..  ..+|     =.||+  .|.+..     ++ +..+      .+..|.......
T Consensus         9 vNIgtiGHVDHGKTTLv~aLTg~-~t--dr~~eE~~RGiTI~--LG~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (410)
T PRK04000          9 VNIGMVGHVDHGKTTLVQALTGV-WT--DTHSEELKRGITIR--LGYADATIYKCPNCEGPEAYTTEPTCPKCGSETELL   83 (410)
T ss_pred             CEEEEEEEECCCHHHHHHHHHCC-CC--CCCHHHHHCCCCCC--CCCCCEEHHCCCCCCCCCCEEEECCCCCCCCCCCCC
T ss_conf             26999965178699999887397-54--23887886488121--051010012054555444135302334445554433


Q ss_pred             EEEEEEEECCCCCCCCCCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             35799985122354322246632899998730374788501234
Q gi|254780226|r   66 PTRMSFVDIAGLVRGASKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        66 p~~i~~iDvaGLv~gA~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                       -.+.++|+||     |+  -+-..-++=+.++|+-|.||+|.+
T Consensus        84 -r~is~VD~PG-----He--~fi~nMi~Gas~~D~alLVVaA~e  119 (410)
T PRK04000         84 -RRVSFVDAPG-----HE--TLMATMLSGAALMDGAVLVIAANE  119 (410)
T ss_pred             -CEEEEEECCC-----HH--HHHHHHHHHHCCCCEEEEEEECCC
T ss_conf             -1699997988-----79--999999840212667999986577


No 225
>TIGR00750 lao LAO/AO transport system ATPase; InterPro: IPR005129   Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components. In Escherichia coli K-12, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK  resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase..
Probab=96.27  E-value=0.0028  Score=41.89  Aligned_cols=22  Identities=45%  Similarity=0.690  Sum_probs=20.1

Q ss_pred             CEEEEEECCCCCHHHHHHHHHC
Q ss_conf             2486752888788899998740
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTR   24 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~   24 (367)
                      ..+||.|.|.+|||||.++++.
T Consensus        39 ~~vG~TG~PGaGKSTl~~~l~~   60 (333)
T TIGR00750        39 HVVGITGVPGAGKSTLVEKLIM   60 (333)
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
T ss_conf             7876646888857779999989


No 226
>cd04129 Rho2 Rho2 subfamily.  Rho2 is a fungal GTPase that plays a role in cell morphogenesis, control of cell wall integrity, control of growth polarity, and maintenance of growth direction.  Rho2 activates the protein kinase C homolog Pck2, and Pck2 controls Mok1, the major (1-3) alpha-D-glucan synthase.  Together with Rho1 (RhoA), Rho2 regulates the construction of the cell wall.  Unlike Rho1, Rho2 is not an essential protein, but its overexpression is lethal.  Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid.  Lipid binding is essential for proper intracellular localization via membrane attachment.  As with other Rho family GTPases, the GDP/GTP cycling is regulated by GEFs (guanine nucleotide exchange factors), GAPs (GTPase-activating proteins) and GDIs (guanine nucleotide dissociation inhibitors).
Probab=96.23  E-value=0.032  Score=34.72  Aligned_cols=82  Identities=24%  Similarity=0.252  Sum_probs=51.7

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337997685558777642186502335799985122354322
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      -||-++|-++||||+|++..... . =..+|     .|.++..++..-       ..+++   +.++++.|.||--.   
T Consensus         2 ~KivllGd~~VGKTsLi~r~~~~-~-f~~~y-----~pTi~~~~~~~i-------~v~~~---~v~l~iwDTaG~e~---   61 (187)
T cd04129           2 RKLVIVGDGACGKTSLLSVFTLG-E-FPEEY-----HPTVFENYVTDC-------RVDGK---PVQLALWDTAGQEE---   61 (187)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHC-C-CCCCC-----CCCEEEEEEEEE-------EECCE---EEEEEEEECCCCCC---
T ss_conf             19999998997689999999829-8-99987-----886678989999-------99999---99999997888703---


Q ss_pred             CCCCCHHHHHHHHHCCCEEEEEECCC
Q ss_conf             24663289999873037478850123
Q gi|254780226|r   83 KGEGLGNQFLAHIREVDAIIHVLRCF  108 (367)
Q Consensus        83 ~G~GlGN~FL~~ir~aDalihVVdaf  108 (367)
                       -+.+-..   ..++||++|.|-|..
T Consensus        62 -~~~~~~~---~~~~a~~~ilvydi~   83 (187)
T cd04129          62 -YERLRPL---SYSKAHVILIGFAVD   83 (187)
T ss_pred             -CCCCCCC---EECCCCEEEEECCCC
T ss_conf             -4546041---233885899970269


No 227
>cd04131 Rnd Rnd subfamily.  The Rnd subfamily contains Rnd1/Rho6, Rnd2/Rho7, and Rnd3/RhoE/Rho8.  These novel Rho family proteins have substantial structural differences compared to other Rho members, including N- and C-terminal extensions relative to other Rhos.  Rnd3/RhoE is farnesylated at the C-terminal prenylation site, unlike most other Rho proteins that are geranylgeranylated.  In addition, Rnd members are unable to hydrolyze GTP and are resistant to GAP activity.  They are believed to exist only in the GTP-bound conformation, and are antagonists of RhoA activity.  Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid.  Lipid binding is essential for membrane attachment, a key feature of most Rho proteins.  Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.
Probab=96.19  E-value=0.053  Score=33.26  Aligned_cols=82  Identities=16%  Similarity=0.200  Sum_probs=49.1

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337997685558777642186502335799985122354322
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      +||=+||-++||||+|++..+.. .- ..+|     .|.++.-+...      - ..+++   +.++++-|.||--    
T Consensus         2 ~KivlvGd~~VGKTsLi~r~~~~-~F-~~~y-----~pTi~~~~~~~------~-~v~~~---~v~l~iwDTaGqe----   60 (178)
T cd04131           2 CKIVVVGDVQCGKTALLQVFAKD-CY-PETY-----VPTVFENYTAS------F-EIDEQ---RIELSLWDTSGSP----   60 (178)
T ss_pred             EEEEEECCCCCCHHHHHHHHHCC-CC-CCCC-----CCCEEEEEEEE------E-EECCE---EEEEEEEECCCCH----
T ss_conf             09999999997789999999639-99-9985-----78568888999------9-99999---9999999689874----


Q ss_pred             CCCCCHHHHHHHHHCCCEEEEEECCC
Q ss_conf             24663289999873037478850123
Q gi|254780226|r   83 KGEGLGNQFLAHIREVDAIIHVLRCF  108 (367)
Q Consensus        83 ~G~GlGN~FL~~ir~aDalihVVdaf  108 (367)
                      +=+.+-..   -.|++|++|.|-|..
T Consensus        61 ~~~~l~~~---~y~~a~~~ilvydit   83 (178)
T cd04131          61 YYDNVRPL---CYPDSDAVLICFDIS   83 (178)
T ss_pred             HHCCHHHH---HHCCCCEEEEEEECC
T ss_conf             21103667---734687899997379


No 228
>cd01886 EF-G Elongation factor G (EF-G) subfamily.  Translocation is mediated by EF-G (also called translocase).  The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA.  This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule.  EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit.  The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit.  To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it.  The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well.  The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site.  This group conta
Probab=96.15  E-value=0.035  Score=34.52  Aligned_cols=89  Identities=20%  Similarity=0.213  Sum_probs=51.5

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEE----CCC---HHHHHHHHHCC---CCEEEEEEEEEEE
Q ss_conf             4867528887888999987404898736668674488337997----685---55877764218---6502335799985
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVA----VPD---PRMHKLAEIAE---SKDLVPTRMSFVD   73 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~----v~d---~~~~~l~~~~~---~~~~~p~~i~~iD   73 (367)
                      .|||+|-..+|||||--|+--.+  ..-+.+        |.+.    +-|   ....+-..+..   +-.+-..+|.|+|
T Consensus         1 Niai~gH~gaGKTtL~EalL~~a--g~i~r~--------G~v~~g~tv~D~~~eE~~R~isi~~~~~~~~w~~~~inliD   70 (270)
T cd01886           1 NIGIIAHIDAGKTTTTERILYYT--GRIHKI--------GEVHGGGATMDFMEQERERGITIQSAATTCFWKDHRINIID   70 (270)
T ss_pred             CEEEEECCCCCHHHHHHHHHHHC--CCCCCC--------CEECCCCCCCCCCHHHHHCCCEEECCEEEEEECCEEEEEEE
T ss_conf             98999689999889999999866--873558--------15538975566848898768707336689998998999986


Q ss_pred             CCCCCCCCCCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             122354322246632899998730374788501234
Q gi|254780226|r   74 IAGLVRGASKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        74 vaGLv~gA~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      .||-.--.       .+....+|-+|+-+.||||..
T Consensus        71 TPG~~DF~-------~e~~~aL~~~D~AviVv~a~~   99 (270)
T cd01886          71 TPGHVDFT-------IEVERSLRVLDGAVAVFDAVA   99 (270)
T ss_pred             CCCCHHHH-------HHHHHHHHHHCEEEEEEECCC
T ss_conf             96967889-------999999877555999984676


No 229
>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily.  Rnd2/Rho7 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd3/RhoE/Rho8.  Rnd2/Rho7 is transiently expressed in radially migrating cells in the brain while they are within the subventricular zone of the hippocampus and cerebral cortex.  These migrating cells typically develop into pyramidal neurons.  Cells that exogenously expressed Rnd2/Rho7 failed to migrate to upper layers of the brain, suggesting that Rnd2/Rho7 plays a role in the radial migration and morphological changes of developing pyramidal neurons, and that Rnd2/Rho7 degradation is necessary for proper cellular migration.  The Rnd2/Rho7 GEF Rapostlin is found primarily in the brain and together with Rnd2/Rho7 induces dendrite branching.  Unlike Rnd1/Rho6 and Rnd3/RhoE/Rho8, which are RhoA antagonists, Rnd2/Rho7 binds the GEF Pragmin and significantly stimulates RhoA activity and Rho-A mediated cell contraction.  Rnd2/Rho7 is also found to be expressed in sperma
Probab=96.15  E-value=0.072  Score=32.36  Aligned_cols=82  Identities=16%  Similarity=0.223  Sum_probs=49.3

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337997685558777642186502335799985122354322
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      +||-+||=++||||+|+...+...  =..+|     .|.++.-+...       -.++++   ++++++-|.||--.-  
T Consensus         2 ~KiVlvGD~~VGKTsLl~~f~~~~--F~~~y-----~pTi~~~~~~~-------~~vd~~---~v~L~iWDTAGqE~y--   62 (222)
T cd04173           2 CKIVVVGDAECGKTALLQVFAKDA--YPGSY-----VPTVFENYTAS-------FEIDKR---RIELNMWDTSGSSYY--   62 (222)
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCC--CCCCC-----CCCEEEEEEEE-------EEECCE---EEEEEEECCCCCCHH--
T ss_conf             099998989989899999996399--99984-----78458778999-------999999---999999768885034--


Q ss_pred             CCCCCHHHHHHHHHCCCEEEEEECCC
Q ss_conf             24663289999873037478850123
Q gi|254780226|r   83 KGEGLGNQFLAHIREVDAIIHVLRCF  108 (367)
Q Consensus        83 ~G~GlGN~FL~~ir~aDalihVVdaf  108 (367)
                        +.+-.   .-.|+||++|.|-|..
T Consensus        63 --~~lr~---~yyr~a~~~llvfdit   83 (222)
T cd04173          63 --DNVRP---LAYPDSDAVLICFDIS   83 (222)
T ss_pred             --HHHHH---HHCCCCCEEEEEEECC
T ss_conf             --55678---7503698999998389


No 230
>cd01884 EF_Tu EF-Tu subfamily.  This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts.  It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors.  The eukaryotic counterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this family.  EF-Tu is one of the most abundant proteins in bacteria, as well as, one of the most highly conserved, and in a number of species the gene is duplicated with identical function.  When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors.  Transfer RNA is carried to the ribosome in these complexes for protein translation.
Probab=96.14  E-value=0.031  Score=34.83  Aligned_cols=90  Identities=22%  Similarity=0.323  Sum_probs=49.0

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCC-C--CCCCCCCCCEEEEECCCHHHHHH----H-HHCCCCEEEEEEEEEEEC
Q ss_conf             24867528887888999987404898736-6--68674488337997685558777----6-421865023357999851
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAA-N--YPFCTIEPNSGEVAVPDPRMHKL----A-EIAESKDLVPTRMSFVDI   74 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~-~--ypFtTi~pn~g~~~v~d~~~~~l----~-~~~~~~~~~p~~i~~iDv   74 (367)
                      +.||++|--..||||+-.+++... .+.. .  ..+.++|-      .+.+|-.-.    + -.+...   ...+.++|.
T Consensus         3 ~Ni~iiGHVDhGKTTL~~~l~~~~-~~~~~~~~~~~~~~D~------~~~EreRGiTI~~~~~~~~~~---~~~~~~IDt   72 (195)
T cd01884           3 VNVGTIGHVDHGKTTLTAAITKVL-AKKGGAKFKKYDEIDK------APEEKARGITINTAHVEYETA---NRHYAHVDC   72 (195)
T ss_pred             EEEEEEEECCCCHHHHHHHHHHHH-HHHCCCCCCCCHHCCC------CHHHHCCCCCCCCEEEEEECC---CEEEEECCC
T ss_conf             799999605886989999999988-6634444112001005------466650588614418999608---816996268


Q ss_pred             CCCCCCCCCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             22354322246632899998730374788501234
Q gi|254780226|r   75 AGLVRGASKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        75 aGLv~gA~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      ||=..       ......+-++.||+.+.||||.+
T Consensus        73 PGH~d-------F~~~~i~g~~~~D~aiLVVdA~e  100 (195)
T cd01884          73 PGHAD-------YIKNMITGAAQMDGAILVVSATD  100 (195)
T ss_pred             CCHHH-------HHHHHHHHHHHCCEEEEEEECCC
T ss_conf             96077-------88899863511362689985277


No 231
>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily.  Rnd1/Rho6 is a member of the novel Rho subfamily Rnd, together with Rnd2/Rho7 and Rnd3/RhoE/Rho8.  Rnd1/Rho6 binds GTP but does not hydrolyze it to GDP, indicating that it is constitutively active.  In rat, Rnd1/Rho6 is highly expressed in the cerebral cortex and hippocampus during synapse formation, and plays a role in spine formation.  Rnd1/Rho6 is also expressed in the liver and in endothelial cells, and is upregulated in uterine myometrial cells during pregnancy.  Like Rnd3/RhoE/Rho8, Rnd1/Rho6 is believed to function as an antagonist to RhoA.  Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid.  Lipid binding is essential for membrane attachment, a key feature of most Rho proteins.  Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.
Probab=96.14  E-value=0.033  Score=34.66  Aligned_cols=84  Identities=20%  Similarity=0.256  Sum_probs=50.3

Q ss_pred             CCCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCC
Q ss_conf             98248675288878889999874048987366686744883379976855587776421865023357999851223543
Q gi|254780226|r    1 MGFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRG   80 (367)
Q Consensus         1 m~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~g   80 (367)
                      |.+||-+||=++||||+|+...+...      || .+..|.++.-+...       -.++++   .+.+++-|.||--. 
T Consensus        12 ~~~KiVlVGD~~VGKTsLl~~~~~~~------F~-~~y~pTv~~~~~~~-------i~v~~~---~v~L~lWDTAGqE~-   73 (232)
T cd04174          12 MRCKLVLVGDVQCGKTAMLQVLAKDC------YP-ETYVPTVFENYTAG-------LETEEQ---RVELSLWDTSGSPY-   73 (232)
T ss_pred             EEEEEEEECCCCCCHHHHHHHHHHCC------CC-CCCCCCEEEEEEEE-------EEECCE---EEEEEEEECCCCCC-
T ss_conf             58899999989989999999997398------99-98588368888999-------999999---99999983899701-


Q ss_pred             CCCCCCCHHHHHHHHHCCCEEEEEECCC
Q ss_conf             2224663289999873037478850123
Q gi|254780226|r   81 ASKGEGLGNQFLAHIREVDAIIHVLRCF  108 (367)
Q Consensus        81 A~~G~GlGN~FL~~ir~aDalihVVdaf  108 (367)
                         =+.+-.   .-.++||++|.|-|..
T Consensus        74 ---y~~lr~---~yY~~a~~~ll~Fdvt   95 (232)
T cd04174          74 ---YDNVRP---LCYSDSDAVLLCFDIS   95 (232)
T ss_pred             ---CCHHHH---HHHCCCCEEEEEEECC
T ss_conf             ---003679---9740687899999689


No 232
>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]
Probab=96.14  E-value=0.009  Score=38.47  Aligned_cols=41  Identities=22%  Similarity=0.205  Sum_probs=27.5

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEE
Q ss_conf             24867528887888999987404898736668674488337997
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVA   46 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~   46 (367)
                      =++||||.-.+|||||++.++|...+..+   -.++.+|.-+.+
T Consensus        30 ~riGLvG~NGaGKSTLLkilaG~~~~~~G---~i~~~~~~~v~~   70 (530)
T COG0488          30 ERIGLVGRNGAGKSTLLKILAGELEPDSG---EVTRPKGLRVGY   70 (530)
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCCCCC---EEEECCCCEEEE
T ss_conf             88999899989889999998299778896---378569807998


No 233
>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=96.13  E-value=0.012  Score=37.61  Aligned_cols=45  Identities=27%  Similarity=0.387  Sum_probs=30.3

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCC-----CCCCCCCCCCEEEEECCC
Q ss_conf             867528887888999987404898736-----668674488337997685
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAA-----NYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~-----~ypFtTi~pn~g~~~v~d   49 (367)
                      +.|+|...+||||+++.++|...+..+     +-|-+-..|.+|++.-.+
T Consensus        32 vsilGpSGcGKSTLLriiAGL~~p~~G~V~~~g~~v~~p~~~~~~vFQ~~   81 (248)
T COG1116          32 VAILGPSGCGKSTLLRLIAGLEKPTSGEVLLDGRPVTGPGPDIGYVFQED   81 (248)
T ss_pred             EEEECCCCCCHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCEEEEECCC
T ss_conf             99989997889999999968787777559988821578998779992667


No 234
>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains; InterPro: IPR005690    Two integral outer envelope GTPases, Toc34 and Toc86, are proposed to regulate the recognition and translocation of nuclear-encoded preproteins during the early stages of protein import into chloroplasts. The long precursor of the 86K protein is proposed to have three domains. The N-terminal A-domain is acidic, repetitive, weakly conserved, readily removed by proteolysis during chloroplast isolation, and not required for protein translocation . The other domains are designated G (GTPase) and M (membrane anchor); this family includes most of the G domain and all of M.; GO: 0015450 P-P-bond-hydrolysis-driven protein transmembrane transporter activity, 0006886 intracellular protein transport, 0009707 chloroplast outer membrane.
Probab=96.10  E-value=0.0082  Score=38.74  Aligned_cols=88  Identities=20%  Similarity=0.397  Sum_probs=63.2

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      |+.|=+.||..||||...|++-+....-+..|-..|..       |.|     ...+.+|     ++|.++|.|||-+.|
T Consensus       124 Sl~IlVLGK~GVGKSATINSI~~e~~~s~dAf~~~T~~-------V~~-----i~G~V~G-----v~i~viDTPGL~~s~  186 (772)
T TIGR00993       124 SLNILVLGKSGVGKSATINSIFGEVKASIDAFGLGTTS-------VQE-----IEGLVDG-----VKIRVIDTPGLKSSA  186 (772)
T ss_pred             EEEEEEECCCCCCCCHHHHHHHCCEEEEEECCCCCCCE-------EEE-----EEEEEEE-----EEEEEEECCCCCHHH
T ss_conf             11434551568772010111123500120101466644-------776-----6667710-----799997578875555


Q ss_pred             CCCCCCHHHHHHHHHCC------CEEEEEECC
Q ss_conf             22466328999987303------747885012
Q gi|254780226|r   82 SKGEGLGNQFLAHIREV------DAIIHVLRC  107 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~a------DalihVVda  107 (367)
                      .+ ..--.|.|+-+...      |.+++|=|-
T Consensus       187 ~d-Qs~N~K~L~sVK~~~KK~PPDIVLY~DRL  217 (772)
T TIGR00993       187 SD-QSKNEKILSSVKKLIKKNPPDIVLYVDRL  217 (772)
T ss_pred             HH-HHHCHHHHHHHHHHHCCCCCCEEEEECCC
T ss_conf             43-33020688888886317969669860022


No 235
>cd04134 Rho3 Rho3 subfamily.  Rho3 is a member of the Rho family found only in fungi.  Rho3 is believed to regulate cell polarity by interacting with the diaphanous/formin family protein For3 to control both the actin cytoskeleton and microtubules.  Rho3 is also believed to have a direct role in exocytosis that is independent of its role in regulating actin polarity.  The function in exocytosis may be two-pronged: first, in the transport of post-Golgi vesicles from the mother cell to the bud, mediated by myosin (Myo2); second, in the docking and fusion of vesicles to the plasma membrane, mediated by an exocyst (Exo70) protein.  Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid.  Lipid binding is essential for membrane attachment, a key feature of most Rho proteins.
Probab=96.10  E-value=0.055  Score=33.17  Aligned_cols=81  Identities=25%  Similarity=0.250  Sum_probs=50.0

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      ||-++|-++||||+|++..+...  =..+|. +||    +..++..       -..+++   ..++++.|.||--.-   
T Consensus         2 KivlvGd~~VGKTsli~r~~~~~--F~~~y~-~Ti----~~~~~~~-------~~v~~~---~v~l~iwDTaGqe~~---   61 (189)
T cd04134           2 KVVVLGDGACGKTSLLNVFTRGY--FPQVYE-PTV----FENYVHD-------IFVDGL---HIELSLWDTAGQEEF---   61 (189)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC--CCCCCC-CCE----EEEEEEE-------EEECCE---EEEEEEEECCCCCCC---
T ss_conf             89999979976999999997099--999868-837----8999999-------999999---999999847785000---


Q ss_pred             CCCCHHHHHHHHHCCCEEEEEECCC
Q ss_conf             4663289999873037478850123
Q gi|254780226|r   84 GEGLGNQFLAHIREVDAIIHVLRCF  108 (367)
Q Consensus        84 G~GlGN~FL~~ir~aDalihVVdaf  108 (367)
                       +.+-..   ..|+||+++.|-|..
T Consensus        62 -~~i~~~---~y~~a~~~ilvydi~   82 (189)
T cd04134          62 -DRLRSL---SYADTDVIMLCFSVD   82 (189)
T ss_pred             -CHHHHH---HHCCCCEEEEEEECC
T ss_conf             -035567---643786459999789


No 236
>KOG1954 consensus
Probab=96.07  E-value=0.035  Score=34.48  Aligned_cols=103  Identities=20%  Similarity=0.284  Sum_probs=64.6

Q ss_pred             EEEEECCCCCHHHHHHHHHCCC--CCCCCCCCCCCCCCCE-----------EEEEC--CCHHHHHHHH----------HC
Q ss_conf             8675288878889999874048--9873666867448833-----------79976--8555877764----------21
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTA--SAQAANYPFCTIEPNS-----------GEVAV--PDPRMHKLAE----------IA   59 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~--~~~~~~ypFtTi~pn~-----------g~~~v--~d~~~~~l~~----------~~   59 (367)
                      |=++|-=+.|||||.+-|+++.  ...|+.-| ||--=++           |.+-+  |+.-+..|..          |.
T Consensus        61 ill~GqyStGKTtfi~yLle~dypg~riGpEP-Ttd~Fi~vM~G~~e~~ipGnal~vd~~~pF~gL~~FG~aflnRf~cs  139 (532)
T KOG1954          61 ILLVGQYSTGKTTFIRYLLEQDYPGLRIGPEP-TTDRFIAVMHGDEEGSIPGNALVVDAKKPFRGLNKFGNAFLNRFMCS  139 (532)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCCCCCCCCCCC-CCCEEEEEEECCCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHHHHH
T ss_conf             89972466660399999871778755468999-75306899855865666786256468775165666679999988773


Q ss_pred             CCCEEEEEEEEEEECCCCCCCCCCCCCCHHHHHHH----HHCCCEEEEEECCC
Q ss_conf             86502335799985122354322246632899998----73037478850123
Q gi|254780226|r   60 ESKDLVPTRMSFVDIAGLVRGASKGEGLGNQFLAH----IREVDAIIHVLRCF  108 (367)
Q Consensus        60 ~~~~~~p~~i~~iDvaGLv~gA~~G~GlGN~FL~~----ir~aDalihVVdaf  108 (367)
                      .-..-+--.|.+||+||+..|..+.-.+|--|-+.    +..||-||.+-|+-
T Consensus       140 qmp~~vLe~vtiVdtPGILsgeKQrisR~ydF~~v~~WFaeR~D~IiLlfD~h  192 (532)
T KOG1954         140 QLPNQVLESVTIVDTPGILSGEKQRISRGYDFTGVLEWFAERVDRIILLFDAH  192 (532)
T ss_pred             CCCHHHHHHEEEECCCCCCCCCHHCCCCCCCHHHHHHHHHHHCCEEEEEECHH
T ss_conf             38756550044423675320122201236780889999997456899972466


No 237
>PRK12735 elongation factor Tu; Reviewed
Probab=96.00  E-value=0.017  Score=36.67  Aligned_cols=88  Identities=23%  Similarity=0.305  Sum_probs=47.3

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCC----CCCCCCCC--CC-CCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEEC
Q ss_conf             82486752888788899998740489----87366686--74-4883379976855587776421865023357999851
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTAS----AQAANYPF--CT-IEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDI   74 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~----~~~~~ypF--tT-i~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDv   74 (367)
                      .+.+|.+|==.+||||+-.+||+...    .....|-.  .+ -|-..|+.-  |    .-...+...+   -.+.++|+
T Consensus        12 ~ini~~~GHVD~GKSTL~g~Lt~~~~~~~~~~~~~~~~~D~~~eEr~rGiTi--d----~~~~~fet~~---~~~~~iD~   82 (396)
T PRK12735         12 HVNVGTIGHVDHGKTTLTAAITTVLAKKGGGEAKAYDQIDNAPEEKARGITI--N----TSHVEYETAN---RHYAHVDC   82 (396)
T ss_pred             EEEEEEEECCCCCHHHHHHHHHHHHHHHCCCCCCCHHHHCCCHHHHCCCEEE--E----EEEEEEECCC---EEEEEEEC
T ss_conf             3499999426885898999986145452464312212211665674377379--8----5699997398---05999836


Q ss_pred             CCCCCCCCCCCCCHHHHHHH----HHCCCEEEEEECCCC
Q ss_conf             22354322246632899998----730374788501234
Q gi|254780226|r   75 AGLVRGASKGEGLGNQFLAH----IREVDAIIHVLRCFK  109 (367)
Q Consensus        75 aGLv~gA~~G~GlGN~FL~~----ir~aDalihVVdaf~  109 (367)
                      ||     |      .+|+.+    ..++|+-+.||+|.+
T Consensus        83 PG-----H------e~fiknMI~Ga~~aD~alLVV~A~~  110 (396)
T PRK12735         83 PG-----H------ADYVKNMITGAAQMDGAILVVSAAD  110 (396)
T ss_pred             CC-----H------HHHHHHHHHCCCCCCEEEEEEECCC
T ss_conf             86-----6------8877666410042567999998687


No 238
>cd01885 EF2 EF2 (for archaea and eukarya).  Translocation requires hydrolysis of a molecule of GTP and is mediated by EF-G in bacteria and by eEF2 in eukaryotes.  The eukaryotic elongation factor eEF2 is a GTPase involved in the translocation of the peptidyl-tRNA from the A site to the P site on the ribosome.  The 95-kDa protein is highly conserved, with 60% amino acid sequence identity between the human and yeast proteins.  Two major mechanisms are known to regulate protein elongation and both involve eEF2.  First, eEF2 can be modulated by reversible phosphorylation.  Increased levels of phosphorylated eEF2 reduce elongation rates presumably because phosphorylated eEF2 fails to bind the ribosomes.  Treatment of mammalian cells with agents that raise the cytoplasmic Ca2+ and cAMP levels reduce elongation rates by activating the kinase responsible for phosphorylating eEF2.  In contrast, treatment of cells with insulin increases elongation rates by promoting eEF2 dephosphorylation.  Seco
Probab=95.89  E-value=0.041  Score=34.04  Aligned_cols=91  Identities=21%  Similarity=0.276  Sum_probs=53.4

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHH---H--------C-----CCCEEEEE
Q ss_conf             486752888788899998740489873666867448833799768555877764---2--------1-----86502335
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAE---I--------A-----ESKDLVPT   67 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~---~--------~-----~~~~~~p~   67 (367)
                      -|+|+|--..|||||.-+|-..... +..       .+.|..++-|.+.+-...   +        +     ....--+-
T Consensus         2 Ni~iigHvdhGKTTL~D~Ll~~~g~-i~~-------~~~g~~~~~D~~~~E~eRgiTIks~~isl~~~~~~~~~~~~~~~   73 (222)
T cd01885           2 NICIIAHVDHGKTTLSDSLLASAGI-ISE-------KLAGKARYMDSREDEQERGITMKSSAISLYFEYEEEDKADGNEY   73 (222)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHCCC-CCH-------HCCCCEEECCCHHHHHHCCCEEEEEEEEEEEEECCCCCCCCCCE
T ss_conf             6999866887799999999998598-412-------10663465142433420541586226899986034434568863


Q ss_pred             EEEEEECCCCCCCCCCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             799985122354322246632899998730374788501234
Q gi|254780226|r   68 RMSFVDIAGLVRGASKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        68 ~i~~iDvaGLv~gA~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      .|.++|.||-+-       .+++...-+|-||+-+.||||.+
T Consensus        74 ~inlIDTPGH~d-------F~~ev~~al~~~DgailVVDa~e  108 (222)
T cd01885          74 LINLIDSPGHVD-------FSSEVTAALRLCDGALVVVDAVE  108 (222)
T ss_pred             EEEEEECCCHHH-------HHHHHHHHHHHCCEEEEEECCCC
T ss_conf             899972885698-------99999999985681799610457


No 239
>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily.  Rnd3/RhoE/Rho8 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd2/Rho7.  Rnd3/RhoE is known to bind the serine-threonine kinase ROCK I.  Unphosphorylated Rnd3/RhoE associates primarily with membranes, but ROCK I-phosphorylated Rnd3/RhoE localizes in the cytosol.  Phosphorylation of Rnd3/RhoE correlates with its activity in disrupting RhoA-induced stress fibers and inhibiting Ras-induced fibroblast transformation.  In cells that lack stress fibers, such as macrophages and monocytes, Rnd3/RhoE induces a redistribution of actin, causing morphological changes in the cell.  In addition, Rnd3/RhoE has been shown to inhibit cell cycle progression in G1 phase at a point upstream of the pRb family pocket protein checkpoint.  Rnd3/RhoE has also been shown to inhibit Ras- and Raf-induced fibroblast transformation.  In mammary epithelial tumor cells, Rnd3/RhoE regulates the assembly of the apical junction complex and tight
Probab=95.88  E-value=0.094  Score=31.60  Aligned_cols=83  Identities=17%  Similarity=0.216  Sum_probs=49.7

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      ..||=+||-++||||+|.+..+...  =...|. +||..+.- ..+          ..++   .+.++++.|.||-    
T Consensus         5 k~KivlvGd~~VGKTsLi~r~~~~~--F~~~y~-pTi~~~~~-~~~----------~i~~---~~v~l~iwDTaGq----   63 (182)
T cd04172           5 KCKIVVVGDSQCGKTALLHVFAKDC--FPENYV-PTVFENYT-ASF----------EIDT---QRIELSLWDTSGS----   63 (182)
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHCC--CCCCCC-CEEEEEEE-EEE----------EECC---EEEEEEEEECCCC----
T ss_conf             4899999999989999999998399--999868-73532268-999----------9999---9999999968986----


Q ss_pred             CCCCCCHHHHHHHHHCCCEEEEEECCC
Q ss_conf             224663289999873037478850123
Q gi|254780226|r   82 SKGEGLGNQFLAHIREVDAIIHVLRCF  108 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~aDalihVVdaf  108 (367)
                      .+=+.+-..+   .|++|++|.|-|..
T Consensus        64 e~f~~l~~~~---y~~~~~~ilvydit   87 (182)
T cd04172          64 PYYDNVRPLS---YPDSDAVLICFDIS   87 (182)
T ss_pred             HHCCCCCHHH---HCCCCEEEEEEECC
T ss_conf             2012212555---12787899996489


No 240
>cd04169 RF3 RF3 subfamily.  Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria.  Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and activate the release of the nascent polypeptide.  The class II release factor RF3 then initiates the release of the class I RF from the ribosome.  RF3 binds to the RF/ribosome complex in the inactive (GDP-bound) state.  GDP/GTP exchange occurs, followed by the release of the class I RF.  Subsequent hydrolysis of GTP to GDP triggers the release of RF3 from the ribosome.  RF3 also enhances the efficiency of class I RFs at less preferred stop codons and at stop codons in weak contexts.
Probab=95.87  E-value=0.056  Score=33.08  Aligned_cols=89  Identities=19%  Similarity=0.241  Sum_probs=50.4

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEE--------CCCH---HHHHHHHH---CCCCEEEEEEE
Q ss_conf             4867528887888999987404898736668674488337997--------6855---58777642---18650233579
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVA--------VPDP---RMHKLAEI---AESKDLVPTRM   69 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~--------v~d~---~~~~l~~~---~~~~~~~p~~i   69 (367)
                      .|||+|--.+|||||.-|+-=.+. .|.         -.|.+.        +.|.   ...+-..+   .-+-.+-..+|
T Consensus         4 niai~gH~gaGKTtL~EalL~~~G-~i~---------r~G~V~~~~~~g~t~~D~~~eE~~R~iSi~~~~~~~~w~~~ki   73 (267)
T cd04169           4 TFAIISHPDAGKTTLTEKLLLFGG-AIR---------EAGAVKARKSRKHATSDWMEIEKQRGISVTSSVMQFEYRDCVI   73 (267)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHCC-CCC---------CCCEEEECCCCCCCCCCCHHHHHHCCCEEECCEEEEEECCEEE
T ss_conf             799984799998999999998668-633---------3854630368886046887999865944863637887899899


Q ss_pred             EEEECCCCCCCCCCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             9985122354322246632899998730374788501234
Q gi|254780226|r   70 SFVDIAGLVRGASKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        70 ~~iDvaGLv~gA~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      .|+|.||-.--.       .+..+.+|-+|.-+.||||..
T Consensus        74 nliDTPG~~DF~-------~e~~~al~v~D~AviVv~a~~  106 (267)
T cd04169          74 NLLDTPGHEDFS-------EDTYRTLTAVDSAVMVIDAAK  106 (267)
T ss_pred             EEEECCCCHHHH-------HHHHHHHHHHHCEEEEEECCC
T ss_conf             999796977899-------999999988645479952566


No 241
>KOG0084 consensus
Probab=95.79  E-value=0.17  Score=29.79  Aligned_cols=84  Identities=23%  Similarity=0.196  Sum_probs=54.2

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337997685558777642186502335799985122354322
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      +||=|+|=.|||||-+.-...+      ..||..++ ..+|+=..-      .+--.++++.   ++|+=|.||=     
T Consensus        10 FKiiliGds~VGKtCL~~Rf~~------~~f~e~~~-sTIGVDf~~------rt~e~~gk~i---KlQIWDTAGQ-----   68 (205)
T KOG0084          10 FKIILIGDSGVGKTCLLLRFKD------DTFTESYI-STIGVDFKI------RTVELDGKTI---KLQIWDTAGQ-----   68 (205)
T ss_pred             EEEEEECCCCCCHHHHHHHHCC------CCCCHHHC-CEEEEEEEE------EEEEECCEEE---EEEEEECCCC-----
T ss_conf             9999987789676355566626------98533323-231267889------8755526488---8876663653-----


Q ss_pred             CCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             246632899998730374788501234
Q gi|254780226|r   83 KGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        83 ~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                       -|-+ --+.+--|+|+++|.|-|+..
T Consensus        69 -ERFr-tit~syYR~ahGii~vyDiT~   93 (205)
T KOG0084          69 -ERFR-TITSSYYRGAHGIIFVYDITK   93 (205)
T ss_pred             -HHHH-HHHHHHCCCCCEEEEEEECCC
T ss_conf             -7775-554766167875999997655


No 242
>COG4172 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]
Probab=95.78  E-value=0.11  Score=31.21  Aligned_cols=32  Identities=22%  Similarity=0.226  Sum_probs=23.6

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCC
Q ss_conf             48675288878889999874048987366686
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPF   35 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypF   35 (367)
                      .++|||-..+|||-.-+++-++-....+.||-
T Consensus        38 tlAlVGESGSGKSvTa~sim~LLp~~~~~~~s   69 (534)
T COG4172          38 TLALVGESGSGKSVTALSILGLLPSPAAAHPS   69 (534)
T ss_pred             EEEEEECCCCCCCHHHHHHHHHCCCCCCCCCC
T ss_conf             79998348898228999999746898545766


No 243
>PRK00741 prfC peptide chain release factor 3; Provisional
Probab=95.72  E-value=0.1  Score=31.36  Aligned_cols=89  Identities=19%  Similarity=0.226  Sum_probs=49.6

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEE--------CCC---HHHHHHHHHC---CCCEEEEEEE
Q ss_conf             4867528887888999987404898736668674488337997--------685---5587776421---8650233579
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVA--------VPD---PRMHKLAEIA---ESKDLVPTRM   69 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~--------v~d---~~~~~l~~~~---~~~~~~p~~i   69 (367)
                      .+||+|-|.+||||+--++--.+ ..|. .        .|.|+        +.|   ....+--.+.   -+-.+--.+|
T Consensus        12 niaIi~H~dAGKTTLtE~lL~~~-GaI~-~--------~G~V~~~~~~~~~~sD~~~~E~~RgiSI~ssv~~~e~~~~~i   81 (526)
T PRK00741         12 TFAIISHPDAGKTTLTEKLLLFG-GAIQ-E--------AGTVKGRKSGRHATSDWMEMEKQRGISVTSSVMQFPYRDCLI   81 (526)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHC-CCCC-C--------CCEEECCCCCCCCCCCCCHHHHHCCCEEECCEEEEEECCEEE
T ss_conf             79999378989899999999746-7524-4--------846631467886467885889975964861517786789899


Q ss_pred             EEEECCCCCCCCCCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             9985122354322246632899998730374788501234
Q gi|254780226|r   70 SFVDIAGLVRGASKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        70 ~~iDvaGLv~gA~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      .++|.||-+--.       -.....+|-+|+-+.||||..
T Consensus        82 NliDTPGh~DF~-------~e~~raL~a~D~Av~Vida~~  114 (526)
T PRK00741         82 NLLDTPGHEDFS-------EDTYRTLTAVDSALMVIDAAK  114 (526)
T ss_pred             EEEECCCCHHHH-------HHHHHHHHHHCEEEEEEECCC
T ss_conf             999098946778-------999999987375999997775


No 244
>PRK00049 elongation factor Tu; Reviewed
Probab=95.61  E-value=0.076  Score=32.21  Aligned_cols=81  Identities=27%  Similarity=0.398  Sum_probs=46.7

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCC-----CCCCCCCCC--CC-CCCCEE------EEECCCHHHHHHHHHCCCCEEEEEE
Q ss_conf             248675288878889999874048-----987366686--74-488337------9976855587776421865023357
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTA-----SAQAANYPF--CT-IEPNSG------EVAVPDPRMHKLAEIAESKDLVPTR   68 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~-----~~~~~~ypF--tT-i~pn~g------~~~v~d~~~~~l~~~~~~~~~~p~~   68 (367)
                      +.+|++|-=.+||||+-.+||+.-     .+....|-.  .+ -|-..|      .++.            ...+   -.
T Consensus        13 ~ni~~~GHVD~GKSTL~g~Lt~~l~~~~g~~~~~~~~~~D~~~eEr~rGiTid~~~~~~------------~t~~---~~   77 (397)
T PRK00049         13 VNVGTIGHVDHGKTTLTAAITKVLAKKYGGAEAKAYDQIDNAPEEKARGITINTAHVEY------------ETEK---RH   77 (397)
T ss_pred             EEEEEEECCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHCCCCHHHHHCCCEEEEEEEEE------------ECCC---CE
T ss_conf             29999912588899999999866665438531001333025766762581699879999------------7288---14


Q ss_pred             EEEEECCCCCCCCCCCCCCHHHHHH----HHHCCCEEEEEECCCC
Q ss_conf             9998512235432224663289999----8730374788501234
Q gi|254780226|r   69 MSFVDIAGLVRGASKGEGLGNQFLA----HIREVDAIIHVLRCFK  109 (367)
Q Consensus        69 i~~iDvaGLv~gA~~G~GlGN~FL~----~ir~aDalihVVdaf~  109 (367)
                      +.++|+||     |+      +|+.    =..++|+-+.||+|.+
T Consensus        78 ~~~iD~PG-----H~------~fiknmI~Ga~~~D~alLVV~A~~  111 (397)
T PRK00049         78 YAHVDCPG-----HA------DYVKNMITGAAQMDGAILVVSAAD  111 (397)
T ss_pred             EEEECCCC-----HH------HHHHHHHHHHCCCCEEEEEEECCC
T ss_conf             99951786-----38------889998730121567999997488


No 245
>smart00053 DYNc Dynamin, GTPase. Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and  plasma membrane following an exocytic event.
Probab=95.58  E-value=0.096  Score=31.51  Aligned_cols=23  Identities=17%  Similarity=0.414  Sum_probs=20.1

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCC
Q ss_conf             48675288878889999874048
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTA   26 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~   26 (367)
                      +|-.||=-++|||+++.|+||..
T Consensus        28 qiVVvGdQSsGKSSvLEaitGi~   50 (240)
T smart00053       28 QIAVVGGQSAGKSSVLENFVGRD   50 (240)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC
T ss_conf             48998887875899999987887


No 246
>PRK13646 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=95.56  E-value=0.21  Score=29.17  Aligned_cols=196  Identities=15%  Similarity=0.281  Sum_probs=88.8

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      -+||+|...+||||+++.+.|.-            .|..|.+.+-+                      .|+.+..     
T Consensus        35 ~~aiiG~nGsGKSTLl~~l~GLl------------~p~~G~I~~~g----------------------~~i~~~~-----   75 (286)
T PRK13646         35 YYAIVGQTGSGKSTLIQNINALL------------KPTTGTVTVDD----------------------ITITHKT-----   75 (286)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCC------------CCCCCEEEECC----------------------EECCCCC-----
T ss_conf             99999999981999999997078------------88887599998----------------------9875557-----


Q ss_pred             CCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Q ss_conf             46632899998730374788501234542113457767321578898888764332224577777875203204677789
Q gi|254780226|r   84 GEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLLQ  163 (367)
Q Consensus        84 G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~~  163 (367)
                          .++++.++|+.=+++     |.+.+     ..  ...  ..+..|+.+.- ...  .+.+..        ......
T Consensus        76 ----~~~~~~~~r~~ig~V-----fQ~P~-----~q--l~~--~tV~~~i~fg~-~~~--g~~~~e--------~~~r~~  126 (286)
T PRK13646         76 ----KDKYIRPVRKRIGMV-----FQFPE-----SQ--LFE--DTVEREMIFGP-KNF--KMNLDE--------AKNYAH  126 (286)
T ss_pred             ----HHHHHHHHHHCEEEE-----EECCH-----HH--HHH--HHHHHHHHHHH-HHC--CCCHHH--------HHHHHH
T ss_conf             ----467899987408999-----98840-----22--207--78999998679-777--999999--------999999


Q ss_pred             HHHHH-HH-HHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHC-----CCHHHHHHHHHHHHHCCCC
Q ss_conf             99998-89-98875874103443132677762102357641010010034301110-----1013467877886436984
Q gi|254780226|r  164 SIISS-SL-RLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCK-----KGNIYTEAVQRLASQQNAE  236 (367)
Q Consensus       164 ~~l~~-~~-~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~-----~~n~~~e~i~~l~~~~~~~  236 (367)
                      ..+.. .+ ..+.+     ..+.++|--+...+.=..-+...|-++++-   .+.+     ......+.+.++..+.+..
T Consensus       127 ~~l~~~gl~~~~~~-----~~p~~LSGGqkqRVaiA~aLa~~P~iLilD---EPTagLDp~~~~~i~~ll~~l~~~~g~T  198 (286)
T PRK13646        127 RLLMDLGFSRDVMS-----QSPFQMSGGQMRKIAIVSILAMNPDIIVVD---EPTAGLDPQSKRQVMRLLKSLQTDENKA  198 (286)
T ss_pred             HHHHHCCCCHHHHH-----CCCCCCCHHHHHHHHHHHHHHCCCCEEEEE---CCCCCCCHHHHHHHHHHHHHHHHHCCCE
T ss_conf             99998499475775-----694329999999999999985198999983---8744389899999999999999953989


Q ss_pred             CCCCCCHHHHHHHHC---------------CCHH---HHHHHHHCCCCCCCHHHHHH
Q ss_conf             033210024665528---------------8426---77887753887422899999
Q gi|254780226|r  237 MIIISAAIEAEISQL---------------PEEE---RALFMEELDISISGLELLIR  275 (367)
Q Consensus       237 ~i~isa~~E~ei~~l---------------~~ee---~~e~l~~~~l~~tgl~~li~  275 (367)
                      ++.++=.++....+.               +.+|   ..+.|+..++..+-+-++..
T Consensus       199 iI~iTHdm~~v~~~adrv~vm~~G~Iv~~G~p~evf~~~~~l~~~~l~~P~~~~l~~  255 (286)
T PRK13646        199 IILISHDMNEVARYADEVIVMKEGSIVSQTSPKELFKDKKKLADWHIGLPEIVQLQY  255 (286)
T ss_pred             EEEECCCHHHHHHHCCEEEEEECCEEEEECCHHHHHCCHHHHHHCCCCCCHHHHHHH
T ss_conf             999913899999969999999898999977899997796579878999984999999


No 247
>PRK10419 nikE nickel transporter ATP-binding protein; Provisional
Probab=95.55  E-value=0.22  Score=29.15  Aligned_cols=168  Identities=18%  Similarity=0.256  Sum_probs=80.3

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      .+||||...+||||+..++.|..            .|..|.+.+.+                      .|+..+      
T Consensus        40 ~l~ivGeSGsGKSTL~r~i~gl~------------~p~sG~I~~~g----------------------~~l~~~------   79 (266)
T PRK10419         40 TVALLGRSGCGKSTLARLLVGLE------------SPSQGNISWRG----------------------EPLAKL------   79 (266)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCC------------CCCCEEEEECC----------------------EECCCC------
T ss_conf             99999999977999999996699------------99962998899----------------------956758------


Q ss_pred             CCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Q ss_conf             46632899998730374788501234542113457767321578898888764332224577777875203204677789
Q gi|254780226|r   84 GEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLLQ  163 (367)
Q Consensus        84 G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~~  163 (367)
                          ..+-+..+|.-   |.+|  |.|     +.++.||..-+...-.|-.. .+..+.    +..              
T Consensus        80 ----~~~~~~~~rr~---i~~V--fQ~-----~~~slnP~~tv~~~i~epl~-~~~~~~----~~~--------------  126 (266)
T PRK10419         80 ----NRAQRKAFRRD---IQMV--FQD-----SISAVNPRKTVREILREPLR-HLLSLD----KAE--------------  126 (266)
T ss_pred             ----CHHHHHHHHCC---CEEE--EEC-----CHHHCCHHHHHHHHHHHHHH-HHCCCC----HHH--------------
T ss_conf             ----99999997547---3899--739-----13636816489999999999-814999----999--------------


Q ss_pred             HHHHHHHHHHHC----CCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCC--HHHHCCCHHHHHHHHHHHHHCCCCC
Q ss_conf             999988998875----8741034431326777621023576410100100343--0111010134678778864369840
Q gi|254780226|r  164 SIISSSLRLIEE----GKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVS--EHDCKKGNIYTEAVQRLASQQNAEM  237 (367)
Q Consensus       164 ~~l~~~~~~Le~----~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~--e~~~~~~n~~~e~i~~l~~~~~~~~  237 (367)
                       ...+..+.|+.    ...+...+.+++--+..-+.=.+-+..+|-++++--.  -.|........+.++++..+.+..+
T Consensus       127 -~~~~~~~~L~~vgL~~~~~~~yP~eLSGGq~QRVaIArAL~~~P~lLi~DEPtsaLD~~~q~~il~ll~~l~~~~g~t~  205 (266)
T PRK10419        127 -RLARASEMLKAVDLDDSVLDKRPPQLSGGQLQRVCLARALAVEPKLLILDEAVSNLDLVLQAGVIRLLKKLQQQFGTAC  205 (266)
T ss_pred             -HHHHHHHHHHHCCCCHHHHHCCHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHHHHHHCCEE
T ss_conf             -9999999998749988987178433792787778986664069878999688653699999999999999999759899


Q ss_pred             CCCCCHHH
Q ss_conf             33210024
Q gi|254780226|r  238 IIISAAIE  245 (367)
Q Consensus       238 i~isa~~E  245 (367)
                      +.++=.+.
T Consensus       206 i~ITHDl~  213 (266)
T PRK10419        206 LFITHDLR  213 (266)
T ss_pred             EEECCCHH
T ss_conf             99889999


No 248
>KOG0076 consensus
Probab=95.54  E-value=0.028  Score=35.09  Aligned_cols=80  Identities=28%  Similarity=0.385  Sum_probs=47.4

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCC-------CCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECC
Q ss_conf             24867528887888999987404898736668-------67448833799768555877764218650233579998512
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYP-------FCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIA   75 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~yp-------FtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDva   75 (367)
                      |-+=|+|+-|+||+||.-++-. .-  ..+|-       -+|..-|+|.+.|-                 .+.+.|.|+.
T Consensus        18 y~vlIlgldnAGKttfLe~~Kt-~~--~~~~~~l~~~ki~~tvgLnig~i~v~-----------------~~~l~fwdlg   77 (197)
T KOG0076          18 YSVLILGLDNAGKTTFLEALKT-DF--SKAYGGLNPSKITPTVGLNIGTIEVC-----------------NAPLSFWDLG   77 (197)
T ss_pred             HHHEEECCCCCCCHHHHHHHHH-HH--HHHHCCCCHHHEECCCCEEECCEEEC-----------------CCEEEEEECC
T ss_conf             3100242445785208988777-88--76516888888101224031316412-----------------5416778867


Q ss_pred             CCCCCCCCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             2354322246632899998730374788501234
Q gi|254780226|r   76 GLVRGASKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        76 GLv~gA~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      |    --.=+.+..+.   -..|.++|.||||..
T Consensus        78 G----Qe~lrSlw~~y---Y~~~H~ii~viDa~~  104 (197)
T KOG0076          78 G----QESLRSLWKKY---YWLAHGIIYVIDATD  104 (197)
T ss_pred             C----HHHHHHHHHHH---HHHHCEEEEEECCCC
T ss_conf             8----08789999999---997263477641777


No 249
>pfam00735 Septin Septin. Members of this family include CDC3, CDC10, CDC11 and CDC12/Septin. Members of this family bind GTP. As regards the septins, these are polypeptides of 30-65kDa with three characteristic GTPase motifs (G-1, G-3 and G-4) that are similar to those of the Ras family. The G-4 motif is strictly conserved with a unique septin consensus of AKAD. Most septins are thought to have at least one coiled-coil region, which in some cases is necessary for intermolecular interactions that allow septins to polymerize to form rod-shaped complexes. In turn, these are arranged into tandem arrays to form filaments. They are multifunctional proteins, with roles in cytokinesis, sporulation, germ cell development, exocytosis and apoptosis.
Probab=95.53  E-value=0.064  Score=32.70  Aligned_cols=67  Identities=25%  Similarity=0.334  Sum_probs=34.8

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHH-CCCCEEEEEEEEEEECCCC
Q ss_conf             24867528887888999987404898736668674488337997685558777642-1865023357999851223
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEI-AESKDLVPTRMSFVDIAGL   77 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~-~~~~~~~p~~i~~iDvaGL   77 (367)
                      +.+=+||-..+|||||.|.|-+........+|-.+ ++-.-.+.+.-.    ...+ .+   -+...+.++|.||.
T Consensus         5 fnimvvG~sGlGKTTfiNtL~~~~~~~~~~~~~~~-~~~~~t~~i~~~----~~~iee~---g~~l~LtiiDTpGf   72 (280)
T pfam00735         5 FTLMVVGESGLGKTTLINTLFLTDLYPERGIPGPS-EKIKKTVEIKAT----TVEIEED---GVKLNLTVIDTPGF   72 (280)
T ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCC-CCCCCCCCEEEE----EEEEEEC---CEEEEEEEEECCCC
T ss_conf             89999779999789999998578577866788843-355677534889----9999889---98999999989984


No 250
>pfam08438 MMR_HSR1_C GTPase of unknown function C-terminal. This domain is found at the C-terminus of pfam01926 in archaeal and eukaryotic GTP-binding proteins.
Probab=95.49  E-value=0.01  Score=38.05  Aligned_cols=58  Identities=24%  Similarity=0.382  Sum_probs=33.0

Q ss_pred             HHHHHHCCCCCCCCCCHHHHHHHH-----------------------CCCHHH--HHHHHHC---CCCCCCHHHHHHH-H
Q ss_conf             788643698403321002466552-----------------------884267--7887753---8874228999999-9
Q gi|254780226|r  227 QRLASQQNAEMIIISAAIEAEISQ-----------------------LPEEER--ALFMEEL---DISISGLELLIRS-G  277 (367)
Q Consensus       227 ~~l~~~~~~~~i~isa~~E~ei~~-----------------------l~~ee~--~e~l~~~---~l~~tgl~~li~~-~  277 (367)
                      .++..+.+..++++||..|..|..                       +++.++  .+++++.   ..+.||+|.++++ +
T Consensus         6 ~kl~e~~~~~vvp~SA~~ElaLr~a~k~glI~Y~pGd~~F~i~~~~~ls~~Q~~aL~~I~~~vl~~~g~TGVq~~ln~aV   85 (92)
T pfam08438         6 EKLKEKYDYIVVPTSAEAELALRRAAKAGLIKYDPGDEDFEITDEKPLSDKQKEALEKIRELVLDRFGSTGVQEAINRAV   85 (92)
T ss_pred             HHHHHHCCCCEEECCHHHHHHHHHHHHCCCEEECCCCCCEEECCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHH
T ss_conf             99998779968977689999999999889976779998536369998899999999999999988828724999999999


Q ss_pred             HHHCCCE
Q ss_conf             9872964
Q gi|254780226|r  278 YRLLDLI  284 (367)
Q Consensus       278 ~~lL~li  284 (367)
                      |++|++|
T Consensus        86 Fd~L~~I   92 (92)
T pfam08438        86 FDLLDLI   92 (92)
T ss_pred             HHHHCCC
T ss_conf             9987449


No 251
>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily.  EF1 is responsible for the GTP-dependent binding of aminoacyl-tRNAs to the ribosomes.  EF1 is composed of four subunits: the alpha chain which binds GTP and aminoacyl-tRNAs, the gamma chain that probably plays a role in anchoring the complex to other cellular components and the beta and delta (or beta') chains.  This subfamily is the alpha subunit, and represents the counterpart of bacterial EF-Tu for the archaea (aEF1-alpha) and eukaryotes (eEF1-alpha).  eEF1-alpha interacts with the actin of the eukaryotic cytoskeleton and may thereby play a role in cellular transformation and apoptosis.  EF-Tu can have no such role in bacteria.  In humans, the isoform eEF1A2 is overexpressed in 2/3 of breast cancers and has been identified as a putative oncogene.  This subfamily also includes Hbs1, a G protein known to be important for efficient growth and protein synthesis under conditions of limiting translation initiation in
Probab=95.43  E-value=0.11  Score=31.06  Aligned_cols=94  Identities=18%  Similarity=0.147  Sum_probs=46.6

Q ss_pred             EEEEECCCCCHHHHHHHHH---CCCCC--------CCCCCCCCCCCCCEEEEECCCHHHHHHH---HH---CCCCEEEEE
Q ss_conf             8675288878889999874---04898--------7366686744883379976855587776---42---186502335
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALT---RTASA--------QAANYPFCTIEPNSGEVAVPDPRMHKLA---EI---AESKDLVPT   67 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT---~~~~~--------~~~~ypFtTi~pn~g~~~v~d~~~~~l~---~~---~~~~~~~p~   67 (367)
                      |+++|-..+||||+..++-   +.-..        +....-    ......+.+-|..-.-..   .+   +..-.+-..
T Consensus         2 i~iiGHvD~GKSTL~g~lL~~~g~i~~~~~~k~~~~~~~~g----k~s~~~a~~lD~~~~ErerGiTI~~~~~~f~~~~~   77 (219)
T cd01883           2 LVVIGHVDAGKSTTTGHLLYLLGGVDKRTIEKYEKEAKEMG----KGSFKYAWVLDTLKEERERGVTIDVGLAKFETEKY   77 (219)
T ss_pred             EEEEECCCCCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCC----CCCCEEEEEECCCHHHHHCCCCEEEEEEEEEECCE
T ss_conf             89996689989999999999859976889999999998549----98750556613898798589258858999984993


Q ss_pred             EEEEEECCCCCCCCCCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             799985122354322246632899998730374788501234
Q gi|254780226|r   68 RMSFVDIAGLVRGASKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        68 ~i~~iDvaGLv~gA~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      ++.++|.||-..       .-..-..-++.||+-|.||||..
T Consensus        78 ~~~iiDtPGH~d-------f~~~mi~g~~~ad~ailvvda~~  112 (219)
T cd01883          78 RFTILDAPGHRD-------FVPNMITGASQADVAVLVVDARK  112 (219)
T ss_pred             EEEEEECCCCHH-------HHHHHHHHHHHCCEEEEEEECCC
T ss_conf             699987897266-------78899987753166899998576


No 252
>cd03221 ABCF_EF-3 ABCF_EF-3  Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth.  EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site.  The reaction requires ATP hydrolysis.  EF-3 contains two ATP nucleotide binding sequence (NBS) motifs.  NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.
Probab=95.42  E-value=0.022  Score=35.80  Aligned_cols=34  Identities=32%  Similarity=0.600  Sum_probs=27.0

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             4867528887888999987404898736668674488337997685
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      .+||+|...+|||||++.++|.            +.|..|.+.+++
T Consensus        28 ~~~l~G~NGsGKTTl~~~l~G~------------~~~~~G~i~~~~   61 (144)
T cd03221          28 RIGLVGRNGAGKSTLLKLIAGE------------LEPDEGIVTWGS   61 (144)
T ss_pred             EEEEECCCCCCHHHHHHHHHCC------------CCCCCEEEEECC
T ss_conf             9999989998499999998489------------889850999999


No 253
>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK.  ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles.  ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP.  In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.
Probab=95.41  E-value=0.15  Score=30.31  Aligned_cols=34  Identities=24%  Similarity=0.420  Sum_probs=26.9

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             4867528887888999987404898736668674488337997685
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      -++|+|...+|||||++.+.|..            +|..|.+.+.+
T Consensus        28 ~~~i~GpSG~GKSTlLr~iaGl~------------~p~~G~I~~~g   61 (213)
T cd03301          28 FVVLLGPSGCGKTTTLRMIAGLE------------EPTSGRIYIGG   61 (213)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCC------------CCCCEEEEECC
T ss_conf             99999999880999999997699------------99863999999


No 254
>cd03245 ABCC_bacteriocin_exporters ABC-type bacteriocin exporters. Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two glycine residues in positions -1 and -2.  A dedicated ATP-binding cassette (ABC) transporter is responsible for the proteolytic cleavage of the leader peptides and subsequent translocation of the bacteriocins across the cytoplasmic membrane.
Probab=95.38  E-value=0.018  Score=36.38  Aligned_cols=36  Identities=39%  Similarity=0.494  Sum_probs=28.9

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCH
Q ss_conf             248675288878889999874048987366686744883379976855
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDP   50 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~   50 (367)
                      -++||+|...+|||||++++++.            .+|..|.+.+-+.
T Consensus        31 ~~v~ivG~sGsGKSTLl~ll~gl------------~~p~~G~I~i~g~   66 (220)
T cd03245          31 EKVAIIGRVGSGKSTLLKLLAGL------------YKPTSGSVLLDGT   66 (220)
T ss_pred             CEEEEECCCCCHHHHHHHHHHCC------------CCCCCCEEEECCE
T ss_conf             99999999998599999999672------------5478658999999


No 255
>PRK13351 elongation factor G; Reviewed
Probab=95.37  E-value=0.11  Score=31.08  Aligned_cols=90  Identities=20%  Similarity=0.267  Sum_probs=54.8

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEE----CCCHHHHHHH---HHC-C--CCEEEEEEEEEEE
Q ss_conf             4867528887888999987404898736668674488337997----6855587776---421-8--6502335799985
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVA----VPDPRMHKLA---EIA-E--SKDLVPTRMSFVD   73 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~----v~d~~~~~l~---~~~-~--~~~~~p~~i~~iD   73 (367)
                      .|||||---.|||||--+|--  .+.+-+.+        |.+.    +-|.+.+--.   .+. .  +-.+-...|.|+|
T Consensus        10 Ni~IiaHvd~GKTTL~d~Ll~--~~g~i~~~--------g~v~~g~t~~D~~~~E~eRgITikss~~sl~~~~~~iNlID   79 (687)
T PRK13351         10 NIGIMAHIDAGKTTLTERILF--YTGKIHKM--------GSVEDGNTVSDWMPQEQERGISIESAAATCDWKNHRINLID   79 (687)
T ss_pred             EEEEECCCCCCHHHHHHHHHH--HCCCCCCC--------CCCCCCCCCCCCCHHHHHCCCCEEEEEEEEEECCEEEEEEE
T ss_conf             899991799898999999999--74998758--------71547874478829999749877621599988998999980


Q ss_pred             CCCCCCCCCCCCCCHHHHHHHHHCCCEEEEEECCCCC
Q ss_conf             1223543222466328999987303747885012345
Q gi|254780226|r   74 IAGLVRGASKGEGLGNQFLAHIREVDAIIHVLRCFKD  110 (367)
Q Consensus        74 vaGLv~gA~~G~GlGN~FL~~ir~aDalihVVdaf~~  110 (367)
                      .||-+--.       .++-..+|=||.-+.||||.+.
T Consensus        80 TPGHvDF~-------~Ev~~aLr~~DgallVVDaveG  109 (687)
T PRK13351         80 TPGHIDFT-------GEVERSLRVLDGAVVVIDAVTG  109 (687)
T ss_pred             CCCCCCHH-------HHHHHHHHHHCEEEEEEECCCC
T ss_conf             97974309-------9999999987868999978999


No 256
>PRK11819 putative ABC transporter ATP-binding protein; Reviewed
Probab=95.36  E-value=0.024  Score=35.61  Aligned_cols=24  Identities=38%  Similarity=0.620  Sum_probs=21.3

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCC
Q ss_conf             248675288878889999874048
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTA   26 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~   26 (367)
                      =++||||.-.+|||||++.++|..
T Consensus        34 e~vgLvG~NGaGKSTLlriLaG~~   57 (556)
T PRK11819         34 AKIGVLGLNGAGKSTLLRIMAGVD   57 (556)
T ss_pred             CEEEEECCCCCHHHHHHHHHHCCC
T ss_conf             899999999971999999984799


No 257
>KOG0395 consensus
Probab=95.30  E-value=0.23  Score=28.93  Aligned_cols=79  Identities=25%  Similarity=0.281  Sum_probs=45.7

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCC-CEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             24867528887888999987404898736668674488-33799768555877764218650233579998512235432
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEP-NSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~p-n~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      .|+-++|-|+||||.+-...-+.  --+..|. .||+- ..-.+.+.+               -+..++++|.+|.-+-.
T Consensus         4 ~kvvvlG~~gVGKSal~~qf~~~--~f~~~y~-ptied~y~k~~~v~~---------------~~~~l~ilDt~g~~~~~   65 (196)
T KOG0395           4 YKVVVLGAGGVGKSALTIQFLTG--RFVEDYD-PTIEDSYRKELTVDG---------------EVCMLEILDTAGQEEFS   65 (196)
T ss_pred             EEEEEECCCCCCCCCEEEEECCC--CCCCCCC-CCCCCCEEEEEEECC---------------EEEEEEEEECCCCCCCH
T ss_conf             47999778988853057896357--5544347-976763159999899---------------78899998288853476


Q ss_pred             CCCCCCHHHHHHH-HHCCCEEEEEECC
Q ss_conf             2246632899998-7303747885012
Q gi|254780226|r   82 SKGEGLGNQFLAH-IREVDAIIHVLRC  107 (367)
Q Consensus        82 ~~G~GlGN~FL~~-ir~aDalihVVda  107 (367)
                              ...+. ++++|+.+.|..+
T Consensus        66 --------~~~~~~~~~~~gF~lVysi   84 (196)
T KOG0395          66 --------AMRDLYIRNGDGFLLVYSI   84 (196)
T ss_pred             --------HHHHHHHHCCCEEEEEEEC
T ss_conf             --------8888775548689999989


No 258
>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=95.28  E-value=0.19  Score=29.59  Aligned_cols=84  Identities=17%  Similarity=0.168  Sum_probs=45.7

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCC-CCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             248675288878889999874048987366686-7448833799768555877764218650233579998512235432
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPF-CTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypF-tTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      ++|=|+|+..+|||+.=|.+-|...-+....+- .|-.-......            .++     -+|.+||.|||-.-.
T Consensus         1 LrIvLlGktGsGKSstgNtILG~~~F~s~~~~~svT~~c~~~~~~------------~~g-----r~v~VIDTPg~~dt~   63 (196)
T cd01852           1 LRLVLVGKTGAGKSATGNTILGREVFESKLSASSVTKTCQKESAV------------WDG-----RRVNVIDTPGLFDTS   63 (196)
T ss_pred             CEEEEECCCCCCCHHHHEEECCCCCCCCCCCCCCCCEEEEEEEEE------------ECC-----CEEEEEECCCCCCCC
T ss_conf             989997899986153403256876667889999875588888899------------889-----379999677635655


Q ss_pred             CCCCCCHHHHHHHHHCC--------CEEEEEECC
Q ss_conf             22466328999987303--------747885012
Q gi|254780226|r   82 SKGEGLGNQFLAHIREV--------DAIIHVLRC  107 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~a--------DalihVVda  107 (367)
                          ....+.-..|.+|        +|++.|+..
T Consensus        64 ----~~~~~~~~ei~~~~~l~~pGpHa~LLVi~~   93 (196)
T cd01852          64 ----VSPEQLSKEIVRCLSLSAPGPHAFLLVVPL   93 (196)
T ss_pred             ----CCHHHHHHHHHHHHHHCCCCCEEEEEEEEC
T ss_conf             ----897999999999998438997399999978


No 259
>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively.  ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.  The nucleotide binding domain shows the highest similarity between all members of the family.  ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=95.21  E-value=0.028  Score=35.18  Aligned_cols=33  Identities=36%  Similarity=0.551  Sum_probs=26.2

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             486752888788899998740489873666867448833799768
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      -+||+|...+||||+++.++|...            |..|.+.+.
T Consensus        32 ~~~iiGpsGsGKSTLl~~i~Gl~~------------p~~G~I~~~   64 (220)
T cd03293          32 FVALVGPSGCGKSTLLRIIAGLER------------PTSGEVLVD   64 (220)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCCC------------CCCCEEEEC
T ss_conf             999999999579999999975999------------887389999


No 260
>cd03249 ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1.  In fact, the yeast MDL1 (multidrug resistance-like protein 1) and MDL2 (multidrug resistance-like protein 2) transporters are also included in this CD.  MDL1 is an ATP-dependent permease that acts as a high-copy suppressor of ATM1 and is thought to have a role in resistance to oxidative stress. Interestingly, subfamily B is more closely related to the carboxyl-terminal component of subfamily C than the two halves of ABCC molecules are with one another.
Probab=95.20  E-value=0.02  Score=36.12  Aligned_cols=35  Identities=31%  Similarity=0.526  Sum_probs=27.6

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             24867528887888999987404898736668674488337997685
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      =++||||...+|||||++.+.+.-            +|..|.+.+-+
T Consensus        30 ~~iaIvG~sGsGKSTLl~ll~gl~------------~p~~G~I~idg   64 (238)
T cd03249          30 KTVALVGSSGCGKSTVVSLLERFY------------DPTSGEILLDG   64 (238)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHCC------------CCCCCEEEECC
T ss_conf             999999999998999999982386------------18851899999


No 261
>PRK10636 putative ABC transporter ATP-binding protein; Provisional
Probab=95.18  E-value=0.027  Score=35.29  Aligned_cols=28  Identities=39%  Similarity=0.580  Sum_probs=22.9

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCC
Q ss_conf             4867528887888999987404898736
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAA   31 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~   31 (367)
                      ++||||.-.+|||||++.++|.-.+..+
T Consensus        29 ~vgLVG~NGsGKSTLlklL~G~~~~d~G   56 (638)
T PRK10636         29 KVGLVGKNGCGKSTLLALLKNEISADGG   56 (638)
T ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCE
T ss_conf             9999889998899999998089988850


No 262
>KOG0448 consensus
Probab=95.17  E-value=0.12  Score=30.90  Aligned_cols=102  Identities=22%  Similarity=0.277  Sum_probs=60.1

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCC----CCCCCCCEE---EEECCC--------------------H--HH
Q ss_conf             824867528887888999987404898736668----674488337---997685--------------------5--58
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYP----FCTIEPNSG---EVAVPD--------------------P--RM   52 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~yp----FtTi~pn~g---~~~v~d--------------------~--~~   52 (367)
                      +||+.|.|-.|.||||+-||+---...+-+-+|    ||-++--.|   +.-.|+                    +  +.
T Consensus       109 ~mKV~ifGrts~GKSt~iNAmL~~klLP~g~gh~TncF~~VegadG~e~vl~~~~s~ek~d~~ti~~~~haL~~~~~~~~  188 (749)
T KOG0448         109 HMKVAIFGRTSAGKSTVINAMLHKKLLPSGIGHTTNCFLEVEGADGAEAVLATEGSEEKIDMKTINQLAHALKPDKDLGA  188 (749)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCCEEECCCCCCCCCCHHHHHHHHHHCCCCCCCCC
T ss_conf             34799957877768999999998720766665531234663146773115516887343218887777875173300376


Q ss_pred             HHHHHHCCCCE---EEEEEEEEEECCCCCCCCCCCCCCHHHHHHHHHCCCEEEEEECC
Q ss_conf             77764218650---23357999851223543222466328999987303747885012
Q gi|254780226|r   53 HKLAEIAESKD---LVPTRMSFVDIAGLVRGASKGEGLGNQFLAHIREVDAIIHVLRC  107 (367)
Q Consensus        53 ~~l~~~~~~~~---~~p~~i~~iDvaGLv~gA~~G~GlGN~FL~~ir~aDalihVVda  107 (367)
                      +-+..+|.|+.   ...--+.++|-|||--++-    +---.-++--++|+.+.|+-|
T Consensus       189 ~sLlrV~~p~~~csLLrnDivliDsPGld~~se----~tswid~~cldaDVfVlV~Na  242 (749)
T KOG0448         189 GSLLRVFWPDDKCSLLRNDIVLIDSPGLDVDSE----LTSWIDSFCLDADVFVLVVNA  242 (749)
T ss_pred             CEEEEEEECCCCCHHHHCCCEEECCCCCCCCHH----HHHHHHHHHHCCCEEEEEECC
T ss_conf             506899942863213305501205888888602----459999764407758999617


No 263
>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]
Probab=95.16  E-value=0.03  Score=34.91  Aligned_cols=61  Identities=16%  Similarity=0.120  Sum_probs=51.4

Q ss_pred             HHHHCCCCCCCHHHHHHHHHHHCCCEEEECC----------CCCCCCCEECCCCCCHHHHHHCCCCHHCCCCEEEEECC
Q ss_conf             8775388742289999999987296466105----------78754540127867677851100121034836999736
Q gi|254780226|r  259 FMEELDISISGLELLIRSGYRLLDLITYFTV----------GPKETRAWTIPRGTNAQKAAGVIHTDFEKGFIRALTIS  327 (367)
Q Consensus       259 ~l~~~~l~~tgl~~li~~~~~lL~li~~~tv----------g~~e~~aw~i~~GstA~d~A~~IHtDi~kgFi~A~v~~  327 (367)
                      ++..+  +.+||+..+.++.   +.++.||+          |...+|+.....|+|+.++++.||++   ||++|..++
T Consensus       279 i~~~y--~~lgl~~~ft~g~---~evrawti~~g~kap~aaG~Ih~Dfe~~fi~aevi~~~d~i~~~---~~~~Akeag  349 (372)
T COG0012         279 IRAGY--GLLGLQTYFTAGV---KEVRAWTIKDGSKAPDAAGVIHPDFEKGFIRAEVISYADLIHYG---GEAAAKEAG  349 (372)
T ss_pred             HHHHH--CCCCHHHHHHHCC---CEEEEEEECCCCCCCCCCCCCCCCHHHCCCCCEEEEHHHHHHCC---CHHHHHHHC
T ss_conf             99874--6555778973268---75999984368853454776040532224555676499998627---489998826


No 264
>cd01882 BMS1 Bms1.  Bms1 is an essential, evolutionarily conserved, nucleolar protein.  Its depletion interferes with processing of the 35S pre-rRNA at sites A0, A1, and A2, and the formation of 40S subunits.  Bms1, the putative endonuclease Rc11, and the essential U3 small nucleolar RNA form a stable subcomplex that is believed to control an early step in the formation of the 40S subumit.  The C-terminal domain of Bms1 contains a GTPase-activating protein (GAP) that functions intramolecularly.  It is believed that Rc11 activates Bms1 by acting as a guanine-nucleotide exchange factor (GEF) to promote GDP/GTP exchange, and that activated (GTP-bound) Bms1 delivers Rc11 to the preribosomes.
Probab=95.15  E-value=0.065  Score=32.67  Aligned_cols=89  Identities=18%  Similarity=0.395  Sum_probs=53.8

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      +.=+.++|-|.|||||+..+|-..       |-=.|+.--.|.+-|-.         .+.+|     ++|+.+|-    .
T Consensus        39 P~vVavvGPpgvGKtTLiksLvk~-------ytk~~l~~i~GPiTvvs---------~K~rR-----iTfiEc~n----D   93 (225)
T cd01882          39 PLVVAVVGPPGVGKTTLIKSLVKN-------YTKQNISDIKGPITVVT---------GKKRR-----LTFIECPN----D   93 (225)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH-------HHHCCCCCCCCCEEEEE---------CCCEE-----EEEEECCC----H
T ss_conf             969999898997788999999999-------85443755788879994---------68426-----89997486----0


Q ss_pred             CCCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHH
Q ss_conf             22466328999987303747885012345421134577673215788988
Q gi|254780226|r   82 SKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIET  131 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~  131 (367)
                           + |..+|-..=||..+.+||++-.=+          ++-+|||+.
T Consensus        94 -----i-~smiD~AKvADlVLl~iD~s~GfE----------mEtfEfLni  127 (225)
T cd01882          94 -----I-NAMIDIAKVADLVLLLIDASFGFE----------METFEFLNI  127 (225)
T ss_pred             -----H-HHHHHHHHHHHEEEEEECCCCCEE----------EEHHHHHHH
T ss_conf             -----9-999878876433688861665535----------208999999


No 265
>PRK13768 GTPase; Provisional
Probab=95.11  E-value=0.045  Score=33.72  Aligned_cols=24  Identities=33%  Similarity=0.463  Sum_probs=20.6

Q ss_pred             CCCEEEEEECCCCCHHHHHHHHHC
Q ss_conf             982486752888788899998740
Q gi|254780226|r    1 MGFKCGIIGLPNVGKSTLFNALTR   24 (367)
Q Consensus         1 m~~kiGlvG~pn~GKST~f~alT~   24 (367)
                      |.+-+=++|-|.+|||||-+++.+
T Consensus         1 M~~~~~ViGpaGSGKsT~~~~l~~   24 (253)
T PRK13768          1 MMYIVFFLGTAGSGKTTLVGALSD   24 (253)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
T ss_conf             971899989999988999999999


No 266
>cd03298 ABC_ThiQ_thiamine_transporter ABC-type thiamine tranport system; part of the binding-protein-dependent transport system tbpA-thiPQ for thiamine and TPP.  Probably responsible for the translocation of thiamine across the membrane. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.  The nucleotide binding domain shows the highest similarity between all members of the family.  ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=95.10  E-value=0.03  Score=34.91  Aligned_cols=32  Identities=38%  Similarity=0.575  Sum_probs=26.0

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEEC
Q ss_conf             48675288878889999874048987366686744883379976
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAV   47 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v   47 (367)
                      -++|+|...+||||+++.+.|..            .|..|.+.+
T Consensus        26 ~~~ilGpSGsGKSTLl~li~Gl~------------~p~sG~I~i   57 (211)
T cd03298          26 ITAIVGPSGSGKSTLLNLIAGFE------------TPQSGRVLI   57 (211)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCC------------CCCCEEEEE
T ss_conf             99999999955999999997699------------988529999


No 267
>cd04166 CysN_ATPS CysN_ATPS subfamily.  CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes.  ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate.  CysD, which catalyzes ATP hydrolysis, is a member of the ATP pyrophosphatase (ATP PPase) family.  CysN hydrolysis of GTP is required for CysD hydrolysis of ATP; however, CysN hydrolysis of GTP is not dependent on CysD hydrolysis of ATP.  CysN is an example of lateral gene transfer followed by acquisition of new function.  In many organisms, an ATPS exists which is not GTP-dependent and shares no sequence or structural similarity to CysN.
Probab=95.08  E-value=0.17  Score=29.91  Aligned_cols=96  Identities=18%  Similarity=0.106  Sum_probs=44.9

Q ss_pred             EEEEEECCCCCHHHHHHHHH---CCCCC-CCCCC---CCCCCCCCEEEEECCCHHHH-HH-------HH-HCCCCEEEEE
Q ss_conf             48675288878889999874---04898-73666---86744883379976855587-77-------64-2186502335
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALT---RTASA-QAANY---PFCTIEPNSGEVAVPDPRMH-KL-------AE-IAESKDLVPT   67 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT---~~~~~-~~~~y---pFtTi~pn~g~~~v~d~~~~-~l-------~~-~~~~~~~~p~   67 (367)
                      |+-++|--..||||+...|-   +.-.. .++.+   .-.+-.+....+.+.|..-+ +.       +. .+...   .-
T Consensus         1 ~~vv~GHVD~GKSTL~g~LL~~~g~i~~~~~~~~~~~~~~~~~~~~~~a~~lD~~~~ErerGiTId~~~~~f~~~---~~   77 (208)
T cd04166           1 RFLTCGSVDDGKSTLIGRLLYDSKSIFEDQLAALESKSCGTGGEPLDLALLVDGLQAEREQGITIDVAYRYFSTP---KR   77 (208)
T ss_pred             CEEEEECCCCCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCHHHHHHCCCCHHHHHCCCCEEEEEEEEEEC---CC
T ss_conf             969997488988899999999829967899999998875416763000343468687882697941058999819---92


Q ss_pred             EEEEEECCCCCCCCCCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             799985122354322246632899998730374788501234
Q gi|254780226|r   68 RMSFVDIAGLVRGASKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        68 ~i~~iDvaGLv~gA~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      ++.++|.||=..       .-..-..-+++||+-+.||||.+
T Consensus        78 ~~~iiDtPGH~d-------fi~nmi~gas~aD~ailVVda~~  112 (208)
T cd04166          78 KFIIADTPGHEQ-------YTRNMVTGASTADLAILLVDARK  112 (208)
T ss_pred             EEEEEECCCCHH-------HHHHHHHHHHHCCEEEEEEECCC
T ss_conf             699987896288-------99999999863774799997588


No 268
>COG1134 TagH ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]
Probab=95.02  E-value=0.03  Score=34.96  Aligned_cols=33  Identities=42%  Similarity=0.693  Sum_probs=27.0

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             486752888788899998740489873666867448833799768
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      ++||||-+.+||||+.+.+.|.            +.|..|.+.|.
T Consensus        55 ~vGiiG~NGaGKSTLlkliaGi------------~~Pt~G~v~v~   87 (249)
T COG1134          55 RVGIIGHNGAGKSTLLKLIAGI------------YKPTSGKVKVT   87 (249)
T ss_pred             EEEEECCCCCCHHHHHHHHHCC------------CCCCCCEEEEC
T ss_conf             9989878998589999999587------------17988259981


No 269
>pfam03308 ArgK ArgK protein. The ArgK protein acts as an ATPase enzyme and as a kinase, and phosphorylates periplasmic binding proteins involved in the LAO (lysine, arginine, ornithine)/AO transport systems.
Probab=95.01  E-value=0.019  Score=36.19  Aligned_cols=23  Identities=48%  Similarity=0.777  Sum_probs=20.9

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHC
Q ss_conf             82486752888788899998740
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTR   24 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~   24 (367)
                      ++.|||.|-|.+|||||.+++..
T Consensus        29 a~~iGiTG~PGaGKStli~~l~~   51 (267)
T pfam03308        29 AHRVGITGVPGAGKSTLIEALGM   51 (267)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
T ss_conf             55998768998879999999999


No 270
>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup.  This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols.  ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules.  The nucleotide-binding domain shows the highest similarity between all members of the family.   ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=94.98  E-value=0.025  Score=35.43  Aligned_cols=34  Identities=26%  Similarity=0.524  Sum_probs=26.5

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             4867528887888999987404898736668674488337997685
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      -+||+|.-.+||||+|+.++|..            .|.-|.+.+-+
T Consensus        28 i~~iiGpnGaGKSTl~~~i~Gl~------------~p~~G~I~~~g   61 (213)
T cd03259          28 FLALLGPSGCGKTTLLRLIAGLE------------RPDSGEILIDG   61 (213)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCC------------CCCCEEEEECC
T ss_conf             99999999973999999997599------------98970899999


No 271
>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional
Probab=94.97  E-value=0.04  Score=34.09  Aligned_cols=33  Identities=24%  Similarity=0.488  Sum_probs=25.8

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             867528887888999987404898736668674488337997685
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      ++|+|...+||||+++.++|..            .|..|.+.+-.
T Consensus        30 ~~lvGpnGaGKSTLl~~i~Gl~------------~p~~G~I~~~G   62 (255)
T PRK11248         30 LVVLGPSGCGKTTLLNLIAGFV------------PPQHGSITLDG   62 (255)
T ss_pred             EEEECCCCCHHHHHHHHHHCCC------------CCCCCEEEECC
T ss_conf             9999999846999999997599------------88997185799


No 272
>cd03252 ABCC_Hemolysin The ABC-transporter hemolysin B is a central component of the secretion machinery that translocates the toxin, hemolysin A, in a Sec-independent fashion across both membranes of E. coli.  The hemolysin A (HlyA) transport machinery is composed of the ATP-binding cassette (ABC) transporter HlyB located in the inner membrane, hemolysin D (HlyD), also anchored in the inner membrane, and TolC, which resides in the outer membrane.  HlyD apparently forms a continuous channel that bridges the entire periplasm, interacting with TolC and HlyB.  This arrangement prevents the appearance of periplasmic intermediates of HlyA during substrate transport.  Little is known about the molecular details of HlyA transport, but it is evident that ATP-hydrolysis by the ABC-transporter HlyB is a necessary source of energy.
Probab=94.97  E-value=0.025  Score=35.45  Aligned_cols=34  Identities=38%  Similarity=0.552  Sum_probs=27.1

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             4867528887888999987404898736668674488337997685
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      ++||||.+.+|||||++.+.+.            .+|..|.+.+-.
T Consensus        30 ~vaivG~sGsGKSTll~ll~gl------------~~p~~G~I~i~g   63 (237)
T cd03252          30 VVGIVGRSGSGKSTLTKLIQRF------------YVPENGRVLVDG   63 (237)
T ss_pred             EEEEECCCCCHHHHHHHHHHCC------------CCCCCCEEEECC
T ss_conf             9999999998599999999677------------657987899999


No 273
>cd03290 ABCC_SUR1_N The SUR domain 1.  The sulfonylurea receptor SUR is an ATP transporter of the ABCC/MRP family with tandem ATPase binding domains.  Unlike other ABC proteins, it has no intrinsic transport function, neither active nor passive, but associates with the potassium channel proteins Kir6.1 or Kir6.2 to form the ATP-sensitive potassium (K(ATP)) channel.  Within the channel complex, SUR serves as a regulatory subunit that fine-tunes the gating of Kir6.x in response to alterations in cellular metabolism.  It constitutes a major pharmaceutical target as it binds numerous drugs, K(ATP) channel openers and blockers, capable of up- or down-regulating channel activity.
Probab=94.88  E-value=0.028  Score=35.12  Aligned_cols=22  Identities=32%  Similarity=0.363  Sum_probs=20.3

Q ss_pred             EEEEEECCCCCHHHHHHHHHCC
Q ss_conf             4867528887888999987404
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRT   25 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~   25 (367)
                      ++||||...+||||+++++.|.
T Consensus        29 ~~~IvG~sGsGKSTLl~~l~g~   50 (218)
T cd03290          29 LTMIVGQVGCGKSSLLLAILGE   50 (218)
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             9999999998099999998555


No 274
>cd01850 CDC_Septin CDC/Septin.  Septins are a conserved family of GTP-binding proteins associated with diverse processes in dividing and non-dividing cells.  They were first discovered in the budding yeast S. cerevisiae as a set of genes (CDC3, CDC10, CDC11 and CDC12) required for normal bud morphology. Septins are also present in metazoan cells, where they are required for cytokinesis in some systems, and implicated in a variety of other processes involving organization of the cell cortex and exocytosis.  In humans, 12 septin genes generate dozens of polypeptides, many of which comprise heterooligomeric complexes. Since septin mutants are commonly defective in cytokinesis and formation of the neck formation of the neck filaments/septin rings, septins have been considered to be the primary constituents of the neck filaments.  Septins belong to the GTPase superfamily for their conserved GTPase motifs and enzymatic activities.
Probab=94.86  E-value=0.03  Score=34.91  Aligned_cols=65  Identities=29%  Similarity=0.444  Sum_probs=35.3

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCC-C---CCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCC
Q ss_conf             2486752888788899998740489873666867-4---4883379976855587776421865023357999851223
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFC-T---IEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGL   77 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFt-T---i~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGL   77 (367)
                      +.+=+||-...|||||.|.|-+. ..-..+.+-. +   +++.+.+...       ...+..  .-+...+.++|.||.
T Consensus         5 fnimVvG~sGlGKsTfiNtLf~~-~~~~~~~~~~~~~~~~~~t~~i~~~-------~~~i~e--~g~~l~LtviDTpGf   73 (276)
T cd01850           5 FNIMVVGESGLGKSTFINTLFNT-KLIPSDYPPDPAEEHIDKTVEIKSS-------KAEIEE--NGVKLKLTVIDTPGF   73 (276)
T ss_pred             EEEEEECCCCCCHHHHHHHHHCC-CCCCCCCCCCCHHHCCCCCCEEEEE-------EEEEEE--CCEEEEEEEEECCCC
T ss_conf             99999768999889999997478-5778777788132056888258999-------999963--998999999976884


No 275
>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1).  NFT1 belongs to the MRP (mulrtidrug resisitance-associated protein) family of ABC transporters.  Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear.  The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed.  MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions such as glutathione, glucuronate, and sulfate.
Probab=94.85  E-value=0.028  Score=35.14  Aligned_cols=34  Identities=41%  Similarity=0.601  Sum_probs=27.2

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             4867528887888999987404898736668674488337997685
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      ++||||...+||||+++++++.-            +|..|.+.+..
T Consensus        36 ~v~ivG~sGsGKSTLl~ll~g~~------------~p~~G~I~idg   69 (207)
T cd03369          36 KIGIVGRTGAGKSTLILALFRFL------------EAEEGKIEIDG   69 (207)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHC------------CCCCCEEEECC
T ss_conf             99999999987999999999872------------88887899999


No 276
>COG0237 CoaE Dephospho-CoA kinase [Coenzyme metabolism]
Probab=94.84  E-value=0.025  Score=35.51  Aligned_cols=24  Identities=33%  Similarity=0.368  Sum_probs=21.9

Q ss_pred             CCCEEEEEECCCCCHHHHHHHHHC
Q ss_conf             982486752888788899998740
Q gi|254780226|r    1 MGFKCGIIGLPNVGKSTLFNALTR   24 (367)
Q Consensus         1 m~~kiGlvG~pn~GKST~f~alT~   24 (367)
                      |.|.|||+|.|.+||||+-+.+..
T Consensus         1 ~~~iIglTG~igsGKStva~~~~~   24 (201)
T COG0237           1 MMLIIGLTGGIGSGKSTVAKILAE   24 (201)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
T ss_conf             964999957887788999999997


No 277
>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein; InterPro: IPR005968   ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions 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 hydrolyze 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 polarize 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 , , , , , .   Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1).     Thiamine pyrophosphate (TPP) is a required cofactor synthesized de novo in Salmonella typhimurium. The primary role for TPP is in central metabolism as an electron carrier and nucleophile for such enzymes as pyruvate dehydrogenase (1.2.4.1 from EC), acetolactate synthase (4.1.3.18 from EC), and alpha-ketoglutarate dehydrogenase (1.2.4.2 from EC).    Despite its importance in cellular physiology, neither the de novo biosynthetic pathway nor the salvage systems for thiamine are fully understood in any organism.    The model describes thiamine ABC transporter, ATP-binding protein, believed to be involved in the specific translocation of thiamine and its phosphoesters across the inner membrane The protein belongs to the larger ABC transport system which consists of at least three components: the inner membrane permease; thiamine binding protein and an ATP-binding subunit. This protein is found so far only in Proteobacteria, and is found in complete genomes only if the ThiB and ThiP subunits are also found. It has been experimentally demonstrated that mutants in the various steps in the de novo synthesis of thiamine and its biologically active form, namely thiamine pyrophosphate can be exogenously supplemented with thiamine, thiamine monophosphate or thiamine pyrophosphate. ; GO: 0005524 ATP binding, 0042626 ATPase activity coupled to transmembrane movement of substances, 0006810 transport, 0009276 1-2nm peptidoglycan-based cell wall.
Probab=94.83  E-value=0.035  Score=34.44  Aligned_cols=35  Identities=46%  Similarity=0.791  Sum_probs=29.5

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCH
Q ss_conf             48675288878889999874048987366686744883379976855
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDP   50 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~   50 (367)
                      +++|+|-..+||||++|.+.|          |  +.|-.|.+.+-|.
T Consensus        26 ~VAi~GpSGAGKSTLLnLiAG----------F--~~PasG~i~~nd~   60 (213)
T TIGR01277        26 RVAILGPSGAGKSTLLNLIAG----------F--LEPASGEIKVNDK   60 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHHH----------H--CCCCCEEEEECCC
T ss_conf             688875898627889877864----------0--4776405887780


No 278
>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export.  They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins.  The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities.  The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD).  ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=94.82  E-value=0.029  Score=35.06  Aligned_cols=34  Identities=41%  Similarity=0.652  Sum_probs=26.7

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             4867528887888999987404898736668674488337997685
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      ++||+|...+|||||+++++|.-            +|..|.+.+..
T Consensus        30 ~i~ivG~sGsGKSTLl~ll~gl~------------~p~~G~I~i~g   63 (171)
T cd03228          30 KVAIVGPSGSGKSTLLKLLLRLY------------DPTSGEILIDG   63 (171)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCC------------CCCCCEEEECC
T ss_conf             99999999983999999997677------------58974899999


No 279
>cd03289 ABCC_CFTR2 The CFTR subfamily domain 2.  The cystic fibrosis transmembrane regulator (CFTR), the product of the gene mutated in patients with cystic fibrosis, has adapted the ABC transporter structural motif to form a tightly regulated anion channel at the apical surface of many epithelia.  Use of the term assembly of a functional ion channel implies the coming together of subunits or at least smaller not-yet functional components of the active whole.  In fact, on the basis of current knowledge only the CFTR polypeptide itself is required to form an ATP- and protein kinase A-dependent low-conductance chloride channel of the type present in the apical membrane of many epithelial cells.  CFTR displays the typical organization (IM-ABC)2 and carries a characteristic hydrophilic R-domain that separates IM1-ABC1 from IM2-ABC2.
Probab=94.81  E-value=0.029  Score=35.05  Aligned_cols=23  Identities=39%  Similarity=0.639  Sum_probs=20.8

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCC
Q ss_conf             24867528887888999987404
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRT   25 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~   25 (367)
                      =++||+|...+||||+++++++.
T Consensus        31 e~vaIvG~sGsGKSTLl~lL~gl   53 (275)
T cd03289          31 QRVGLLGRTGSGKSTLLSAFLRL   53 (275)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
T ss_conf             99999999999799999999603


No 280
>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance.  Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis.  The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC.  Bacitracin has potent antibiotic activity against gram-positive bacteria.  The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin.  The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC.  B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.
Probab=94.80  E-value=0.033  Score=34.62  Aligned_cols=33  Identities=27%  Similarity=0.535  Sum_probs=25.8

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             867528887888999987404898736668674488337997685
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      +||+|.-.+||||+++.++|..            .|..|.+.+-.
T Consensus        29 ~gllG~NGaGKSTLl~~i~Gl~------------~p~~G~i~i~G   61 (208)
T cd03268          29 YGFLGPNGAGKTTTMKIILGLI------------KPDSGEITFDG   61 (208)
T ss_pred             EEEECCCCCCHHHHHHHHHCCC------------CCCCCEEEECC
T ss_conf             9999999999999999995783------------78989999999


No 281
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=94.78  E-value=0.025  Score=35.47  Aligned_cols=56  Identities=30%  Similarity=0.462  Sum_probs=36.2

Q ss_pred             CCCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECC
Q ss_conf             982486752888788899998740489873666867448833799768555877764218650233579998512
Q gi|254780226|r    1 MGFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIA   75 (367)
Q Consensus         1 m~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDva   75 (367)
                      |.|||+|.|-|.|||||+...+.+.    ..+-+|     ++|=..+|.-|       .+++|+-   .+++|++
T Consensus         4 ~~mki~ITG~PGvGKtTl~~ki~e~----L~~~g~-----kvgGf~t~EVR-------~gGkR~G---F~Ivdl~   59 (179)
T COG1618           4 MAMKIFITGRPGVGKTTLVLKIAEK----LREKGY-----KVGGFITPEVR-------EGGKRIG---FKIVDLA   59 (179)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH----HHHCCC-----EEEEEEEEEEE-------CCCEEEE---EEEEECC
T ss_conf             5459998679984589999999999----985596-----65139831142-------0882751---5999814


No 282
>cd03251 ABCC_MsbA MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins.  ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.  The nucleotide binding domain shows the highest similarity between all members of the family.  ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=94.73  E-value=0.033  Score=34.69  Aligned_cols=34  Identities=29%  Similarity=0.508  Sum_probs=27.1

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             4867528887888999987404898736668674488337997685
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      +++|+|...+|||||++.+++.-            .|..|.+.+..
T Consensus        30 ~i~IvG~sGsGKSTLl~ll~gl~------------~p~~G~I~i~g   63 (234)
T cd03251          30 TVALVGPSGSGKSTLVNLIPRFY------------DVDSGRILIDG   63 (234)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCC------------CCCCCEEEECC
T ss_conf             99999899982999999996676------------67886899999


No 283
>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE).  The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane components (NikB and NikC), and two ATPase (NikD and NikE).  The NikABCDE transporter is synthesized under anaerobic conditions to meet the increased demand for nickel resulting from hydrogenase synthesis.  The molecular mechanism of nickel uptake in many bacteria and most archaea is not known.  Many other members of this ABC family are also involved in the uptake of dipeptides and oligopeptides.  The oligopeptide transport system (Opp) is a five-component ABC transport composed of a membrane-anchored substrate binding proteins (SRP), OppA, two transmembrane proteins, OppB and OppC, and two ATP-binding domains, OppD and OppF.
Probab=94.73  E-value=0.048  Score=33.55  Aligned_cols=33  Identities=33%  Similarity=0.522  Sum_probs=26.4

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             486752888788899998740489873666867448833799768
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      .+||+|...+||||+.+++.|.-            .|..|.+.+-
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~Gl~------------~p~~G~I~~~   65 (228)
T cd03257          33 TLGLVGESGSGKSTLARAILGLL------------KPTSGSIIFD   65 (228)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCC------------CCCCCEEEEC
T ss_conf             99999999986999999997289------------8788669989


No 284
>PRK10522 multidrug transporter membrane component/ATP-binding component; Provisional
Probab=94.73  E-value=0.033  Score=34.64  Aligned_cols=11  Identities=36%  Similarity=0.845  Sum_probs=5.2

Q ss_pred             CHHHHHHHHHC
Q ss_conf             32899998730
Q gi|254780226|r   87 LGNQFLAHIRE   97 (367)
Q Consensus        87 lGN~FL~~ir~   97 (367)
                      +|+++..++|+
T Consensus        75 ~~~~i~~~lR~   85 (547)
T PRK10522         75 LGHHFVYRLRS   85 (547)
T ss_pred             HHHHHHHHHHH
T ss_conf             99999999999


No 285
>cd03291 ABCC_CFTR1 The CFTR subfamily domain 1.  The cystic fibrosis transmembrane regulator (CFTR), the product of the gene mutated in patients with cystic fibrosis, has adapted the ABC transporter structural motif to form a tightly regulated anion channel at the apical surface of many epithelia.  Use of the term assembly of a functional ion channel implies the coming together of subunits, or at least smaller not-yet functional components of the active whole.  In fact, on the basis of current knowledge only the CFTR polypeptide itself is required to form an ATP- and protein kinase A-dependent low-conductance chloride channel of the type present in the apical membrane of many epithelial cells.  CFTR displays the typical organization (IM-ABC)2 and carries a characteristic hydrophilic R-domain that separates IM1-ABC1 from IM2-ABC2.
Probab=94.72  E-value=0.032  Score=34.71  Aligned_cols=32  Identities=25%  Similarity=0.422  Sum_probs=25.4

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEEC
Q ss_conf             48675288878889999874048987366686744883379976
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAV   47 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v   47 (367)
                      ++||||...+||||+++.+++.-            +|.-|.+.+
T Consensus        65 ~vaIVG~sGSGKSTLl~lL~gl~------------~p~~G~I~~   96 (282)
T cd03291          65 MLAITGSTGSGKTSLLMLILGEL------------EPSEGKIKH   96 (282)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCC------------CCCCCEEEE
T ss_conf             99999999981999999995787------------278658999


No 286
>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]
Probab=94.70  E-value=0.035  Score=34.48  Aligned_cols=22  Identities=41%  Similarity=0.539  Sum_probs=15.1

Q ss_pred             EEEEEECCCCCHHHHHHHHHCC
Q ss_conf             4867528887888999987404
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRT   25 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~   25 (367)
                      ++||||...+||||+.+.++|.
T Consensus       501 ~vaIvG~SGsGKSTL~KLL~gl  522 (709)
T COG2274         501 KVAIVGRSGSGKSTLLKLLLGL  522 (709)
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             8999879999889999998367


No 287
>cd03250 ABCC_MRP_domain1 Domain 1 of the ABC subfamily C.  This family is also known as MRP (mulrtidrug resisitance-associated protein).  Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear.  The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.
Probab=94.68  E-value=0.065  Score=32.67  Aligned_cols=22  Identities=36%  Similarity=0.483  Sum_probs=20.1

Q ss_pred             EEEEEECCCCCHHHHHHHHHCC
Q ss_conf             4867528887888999987404
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRT   25 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~   25 (367)
                      .+||+|...+||||+++.+.|.
T Consensus        33 ~~~IvG~sGsGKSTLl~~i~G~   54 (204)
T cd03250          33 LVAIVGPVGSGKSSLLSALLGE   54 (204)
T ss_pred             EEEEECCCCCCHHHHHHHHCCC
T ss_conf             9999999998589999998189


No 288
>PTZ00141 elongation factor 1 alpha; Provisional
Probab=94.66  E-value=0.12  Score=30.93  Aligned_cols=82  Identities=18%  Similarity=0.234  Sum_probs=46.7

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCC---------------CCC----CCCCCC----------CCCCEEEEECCCHHH
Q ss_conf             824867528887888999987404898---------------736----668674----------488337997685558
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASA---------------QAA----NYPFCT----------IEPNSGEVAVPDPRM   52 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~---------------~~~----~ypFtT----------i~pn~g~~~v~d~~~   52 (367)
                      .++++++|-=.+||||+.-.|. ...-               +.+    .|.|-+          |--++|..+      
T Consensus         7 ~l~i~~~GhVD~GKSTL~G~Ll-~~~g~v~~~~~~~~~~~~~~~g~~~~~~a~~~D~~~~Er~rGiTidv~~~~------   79 (443)
T PTZ00141          7 HINLVVIGHVDSGKSTTTGHLI-YKLGGIDKRTIEKFEKESAEMGKGSFKYAWVLDKLKAERERGITIDIALWK------   79 (443)
T ss_pred             EEEEEEECCCCCCHHHHHHHHH-HHCCCCCHHHHHHHHHHHHHHCCCCCEEHHHHCCCHHHHHCCCEEEEEEEE------
T ss_conf             6599999477982888899999-873884688999998888871787200044530776676367107347999------


Q ss_pred             HHHHHHCCCCEEEEEEEEEEECCCCCCCCCCCCCCHHHHHHH----HHCCCEEEEEECCCCC
Q ss_conf             777642186502335799985122354322246632899998----7303747885012345
Q gi|254780226|r   53 HKLAEIAESKDLVPTRMSFVDIAGLVRGASKGEGLGNQFLAH----IREVDAIIHVLRCFKD  110 (367)
Q Consensus        53 ~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~G~GlGN~FL~~----ir~aDalihVVdaf~~  110 (367)
                            +...+   -.+.++|+||     |      .+|+.+    +.++|+-|.||||-..
T Consensus        80 ------f~t~~---~~~~iiD~PG-----H------~~fi~nmi~Gas~aD~ailvVdA~~G  121 (443)
T PTZ00141         80 ------FETPK---YYYTVIDAPG-----H------RDFIKNMITGTSQADVALLVVPAEVG  121 (443)
T ss_pred             ------EECCC---EEEEEEECCC-----H------HHHHHHHHHHHCCCCEEEEEEECCCC
T ss_conf             ------94398---8999998997-----2------88899999634107758999986778


No 289
>PRK10790 putative multidrug transporter membrane\ATP-binding components; Provisional
Probab=94.63  E-value=0.035  Score=34.46  Aligned_cols=19  Identities=37%  Similarity=0.525  Sum_probs=6.7

Q ss_pred             EEEEECCCCCHHHHHHHHH
Q ss_conf             8675288878889999874
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALT   23 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT   23 (367)
                      +||||...+||||+++.+.
T Consensus       370 vaIVG~SGsGKSTL~~LL~  388 (593)
T PRK10790        370 VALVGHTGSGKSTLASLLM  388 (593)
T ss_pred             EEEECCCCCCHHHHHHHHH
T ss_conf             9987999886899999999


No 290
>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein; InterPro: IPR011924   ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions 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 hydrolyze 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 polarize 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 , , , , , .   Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1).     This entry represents LolD, a member of the ABC transporter family. LolD is involved in localization of lipoproteins in some bacteria. It works with a transmembrane protein LolC, which in some species is a paralogous pair LolC and LolE. Depending on the residue immediately following the modified N-terminal Cys residue, the nascent lipoprotein may be carried further by LolA and LolB to the outer membrane, or remain at the inner membrane. Excluded from this entry are homologs from the archaeal genus Methanosarcina .; GO: 0005524 ATP binding, 0006810 transport, 0016020 membrane.
Probab=94.62  E-value=0.043  Score=33.85  Aligned_cols=41  Identities=37%  Similarity=0.540  Sum_probs=31.3

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHH
Q ss_conf             86752888788899998740489873666867448833799768555877764
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAE   57 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~   57 (367)
                      ++|||...||||||.=.|-|+..            |..|.|.+-=..+.+++.
T Consensus        34 ~~IvG~SGSGKSTLLHlLGGLD~------------PT~G~v~f~G~~l~~lS~   74 (221)
T TIGR02211        34 VAIVGSSGSGKSTLLHLLGGLDN------------PTSGEVLFNGQSLSKLSS   74 (221)
T ss_pred             EEEECCCCCCHHHHHHHHHCCCC------------CCCCEEEECCCCHHHCCH
T ss_conf             79873678716899998730689------------963158970632344044


No 291
>cd03253 ABCC_ATM1_transporter ATM1 is an ABC transporter that is expressed in the mitochondria.  Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to mitochondrial DNA, and decreased levels of cytosolic heme proteins.  ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.  The nucleotide binding domain shows the highest similarity between all members of the family.  ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=94.57  E-value=0.035  Score=34.44  Aligned_cols=34  Identities=32%  Similarity=0.497  Sum_probs=26.8

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             4867528887888999987404898736668674488337997685
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      ++||||...+||||+.+.+.+.-            .|..|.+.+-+
T Consensus        29 ~v~ivG~sGsGKSTLl~ll~gl~------------~p~~G~I~idg   62 (236)
T cd03253          29 KVAIVGPSGSGKSTILRLLFRFY------------DVSSGSILIDG   62 (236)
T ss_pred             EEEEECCCCCCHHHHHHHHCCCC------------CCCCCEEEECC
T ss_conf             99999999998999999974385------------48874899999


No 292
>PRK09435 arginine/ornithine transport system ATPase; Provisional
Probab=94.54  E-value=0.029  Score=35.07  Aligned_cols=23  Identities=48%  Similarity=0.810  Sum_probs=20.6

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHC
Q ss_conf             82486752888788899998740
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTR   24 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~   24 (367)
                      +..|||.|-|.+|||||.+++..
T Consensus        49 a~~iGiTG~pG~GKStli~~l~~   71 (325)
T PRK09435         49 ALRIGITGVPGVGKSTFIEALGM   71 (325)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
T ss_conf             25997427999868899999999


No 293
>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein.  In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor.  This subfamily belongs to the MRP-like family and is involved in drug, peptide, and lipid export.  The MRP-like family, similar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains each composed of six transmembrane (TM) helices and two nucleotide-binding domains (NBD).  ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=94.51  E-value=0.038  Score=34.23  Aligned_cols=36  Identities=33%  Similarity=0.595  Sum_probs=27.7

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             824867528887888999987404898736668674488337997685
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      +-+++|+|...+|||||.+.+.+.-            .|..|.+.+-+
T Consensus        29 Ge~vaivG~sGsGKSTLl~ll~gl~------------~p~~G~I~idg   64 (229)
T cd03254          29 GETVAIVGPTGAGKTTLINLLMRFY------------DPQKGQILIDG   64 (229)
T ss_pred             CCEEEEECCCCCHHHHHHHHHHCCC------------CCCCCEEEECC
T ss_conf             9999999999980999999996686------------67873899999


No 294
>PRK11147 ABC transporter ATPase component; Reviewed
Probab=94.48  E-value=0.037  Score=34.29  Aligned_cols=25  Identities=28%  Similarity=0.426  Sum_probs=21.6

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCC
Q ss_conf             4867528887888999987404898
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASA   28 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~   28 (367)
                      ++||||.-.+|||||++.++|...+
T Consensus        31 ~vgLVG~NGsGKSTLl~iL~G~~~~   55 (632)
T PRK11147         31 RVCLVGRNGAGKSTLMKILSGEVLL   55 (632)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCCCC
T ss_conf             9999999998799999998389988


No 295
>PRK10789 putative multidrug transporter membrane\ATP-binding components; Provisional
Probab=94.47  E-value=0.033  Score=34.64  Aligned_cols=20  Identities=45%  Similarity=0.659  Sum_probs=8.1

Q ss_pred             EEEEECCCCCHHHHHHHHHC
Q ss_conf             86752888788899998740
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTR   24 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~   24 (367)
                      +||||...+||||+.+.+.+
T Consensus       344 vaIVG~SGsGKSTLl~LL~g  363 (569)
T PRK10789        344 LGICGPTGSGKSTLLSLIQR  363 (569)
T ss_pred             EEEECCCCCCHHHHHHHHHH
T ss_conf             99879999987999999997


No 296
>PRK13638 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=94.45  E-value=0.038  Score=34.27  Aligned_cols=31  Identities=39%  Similarity=0.612  Sum_probs=25.0

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEEC
Q ss_conf             8675288878889999874048987366686744883379976
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAV   47 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v   47 (367)
                      +||+|.-.+||||||++++|..            .|..|.+.+
T Consensus        30 ~~liGpNGaGKSTLlk~l~Gl~------------~p~~G~I~~   60 (271)
T PRK13638         30 TGLVGANGCGKSTLFMNLSGLL------------RPQKGAVLW   60 (271)
T ss_pred             EEEECCCCCCHHHHHHHHHCCC------------CCCCEEEEE
T ss_conf             9999999980999999996688------------888607999


No 297
>cd03244 ABCC_MRP_domain2 Domain 2 of the ABC subfamily C.  This family is also known as MRP (mulrtidrug resisitance-associated protein).  Some of the MRP members have five additional transmembrane segments in their N-terminus, but the function of these additional membrane-spanning domains is not clear.  The MRP was found in the multidrug-resistance lung cancer cell in which p-glycoprotein was not overexpressed.  MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.
Probab=94.44  E-value=0.042  Score=33.94  Aligned_cols=34  Identities=41%  Similarity=0.595  Sum_probs=27.1

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             4867528887888999987404898736668674488337997685
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      ++||+|...+|||||++.+.+.-            +|..|.+.+..
T Consensus        32 ~v~ivG~sGsGKSTLl~ll~gl~------------~p~~G~I~i~g   65 (221)
T cd03244          32 KVGIVGRTGSGKSSLLLALFRLV------------ELSSGSILIDG   65 (221)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC------------CCCCCEEEECC
T ss_conf             99999999998999999996797------------18984899999


No 298
>PRK13546 teichoic acids export protein ATP-binding subunit; Provisional
Probab=94.43  E-value=0.038  Score=34.21  Aligned_cols=32  Identities=34%  Similarity=0.558  Sum_probs=25.1

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEEC
Q ss_conf             48675288878889999874048987366686744883379976
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAV   47 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v   47 (367)
                      -+||+|...+||||+++.++|.-            .|..|.+.+
T Consensus        52 ivgllG~NGaGKSTLlk~I~Gl~------------~P~~G~I~~   83 (264)
T PRK13546         52 VIGLVGINGSGKSTLSNIIGGSL------------SPTVGKVDR   83 (264)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCC------------CCCCCEEEE
T ss_conf             99999899861999999996798------------888747999


No 299
>KOG0468 consensus
Probab=94.40  E-value=0.25  Score=28.72  Aligned_cols=88  Identities=20%  Similarity=0.386  Sum_probs=54.9

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCC-----CCCCCC-----------CCCCCEEEEECCCHHHHHHHHHCCCCEEEEE
Q ss_conf             486752888788899998740489873-----666867-----------4488337997685558777642186502335
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQA-----ANYPFC-----------TIEPNSGEVAVPDPRMHKLAEIAESKDLVPT   67 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~-----~~ypFt-----------Ti~pn~g~~~v~d~~~~~l~~~~~~~~~~p~   67 (367)
                      .+|++|.-..|||+|...|-+....+.     +..-||           +|+.+.-.+-++|         .+++.+.  
T Consensus       130 nV~l~GhLhhGKT~l~D~Lv~~tHp~~~~~~e~~lrytD~l~~E~eRg~sIK~~p~Tl~l~D---------~~~KS~l--  198 (971)
T KOG0468         130 NVGLVGHLHHGKTALMDLLVEQTHPDFSKNTEADLRYTDTLFYEQERGCSIKSTPVTLVLSD---------SKGKSYL--  198 (971)
T ss_pred             EEEEEECCCCCHHHHHHHHCEECCCCCCCCCCCCCCCCCCCHHHHHCCCEEEECCEEEEEEC---------CCCCEEE--
T ss_conf             99886114567157877631313465555423563136642456754856761322899856---------7672433--


Q ss_pred             EEEEEECCCCCCCCCCCCCCHHHHHHHHHCCCEEEEEECCCCC
Q ss_conf             7999851223543222466328999987303747885012345
Q gi|254780226|r   68 RMSFVDIAGLVRGASKGEGLGNQFLAHIREVDAIIHVLRCFKD  110 (367)
Q Consensus        68 ~i~~iDvaGLv~gA~~G~GlGN~FL~~ir~aDalihVVdaf~~  110 (367)
                       ++++|.||-|--..       +.-..+|.+|..+.|||+-++
T Consensus       199 -~nilDTPGHVnF~D-------E~ta~l~~sDgvVlvvDv~EG  233 (971)
T KOG0468         199 -MNILDTPGHVNFSD-------ETTASLRLSDGVVLVVDVAEG  233 (971)
T ss_pred             -EEEECCCCCCCCHH-------HHHHHHHHCCEEEEEEECCCC
T ss_conf             -55525887555068-------888886523637999982257


No 300
>cd03288 ABCC_SUR2 The SUR domain 2.  The sulfonylurea receptor SUR is an ATP binding cassette (ABC) protein of the ABCC/MRP family.  Unlike other ABC proteins, it has no intrinsic transport function, neither active nor passive, but associates with the potassium channel proteins Kir6.1 or Kir6.2 to form the ATP-sensitive potassium (K(ATP)) channel.  Within the channel complex, SUR serves as a regulatory subunit that fine-tunes the gating of Kir6.x in response to alterations in cellular metabolism.  It constitutes a major pharmaceutical target as it binds numerous drugs, K(ATP) channel openers and blockers, capable of up- or down-regulating channel activity.
Probab=94.40  E-value=0.043  Score=33.91  Aligned_cols=35  Identities=31%  Similarity=0.412  Sum_probs=27.7

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCH
Q ss_conf             48675288878889999874048987366686744883379976855
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDP   50 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~   50 (367)
                      ++||+|...+|||||++++.+.-            +|..|.+.+-..
T Consensus        49 ~vaIvG~sGsGKSTL~~ll~gl~------------~p~~G~I~idg~   83 (257)
T cd03288          49 KVGICGRTGSGKSSLSLAFFRMV------------DIFDGKIVIDGI   83 (257)
T ss_pred             EEEEECCCCCCHHHHHHHHHHCC------------CCCCCEEEECCE
T ss_conf             99999999981999999996056------------678888999989


No 301
>cd03248 ABCC_TAP TAP, the Transporter Associated with Antigen Processing; TAP is essential for peptide delivery from the cytosol into the lumen of the endoplasmic reticulum (ER), where these peptides are loaded on major histocompatibility complex (MHC) I molecules.  Loaded MHC I leave the ER and display their antigenic cargo on the cell surface to cytotoxic T cells.  Subsequently, virus-infected or malignantly transformed cells can be eliminated.  TAP belongs to the large family of ATP-binding cassette (ABC) transporters, which translocate a vast variety of solutes across membranes.
Probab=94.37  E-value=0.043  Score=33.86  Aligned_cols=34  Identities=26%  Similarity=0.443  Sum_probs=27.3

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             4867528887888999987404898736668674488337997685
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      ++||||...+||||+++.+.+.-            .|..|.+.+..
T Consensus        42 ~vaIvG~sGsGKSTL~~ll~gl~------------~p~~G~I~idg   75 (226)
T cd03248          42 VTALVGPSGSGKSTVVALLENFY------------QPQGGQVLLDG   75 (226)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCC------------CCCCCEEEECC
T ss_conf             99999999984999999996454------------67887899999


No 302
>PRK11160 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed
Probab=94.29  E-value=0.047  Score=33.59  Aligned_cols=14  Identities=21%  Similarity=-0.002  Sum_probs=5.5

Q ss_pred             HHCCCCEEEEECCH
Q ss_conf             10348369997368
Q gi|254780226|r  315 DFEKGFIRALTISY  328 (367)
Q Consensus       315 Di~kgFi~A~v~~~  328 (367)
                      .+.+|=..|+|.++
T Consensus       363 ~i~~Ge~vaiVG~S  376 (575)
T PRK11160        363 QIKAGEKVALLGRT  376 (575)
T ss_pred             EECCCCEEEEECCC
T ss_conf             97699889998899


No 303
>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component.  Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems.  The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under stressful conditions.  The SUF system is made of six proteins: SufC is an atypical cytoplasmic ABC-ATPase, which forms a complex with SufB and SufD; SufA plays the role of a scaffold protein for assembly of iron-sulfur clusters and delivery to target proteins; SufS is a cysteine desulfurase which mobilizes the sulfur atom from cysteine and provides it to the cluster; SufE has no associated function yet.
Probab=94.27  E-value=0.057  Score=33.03  Aligned_cols=36  Identities=25%  Similarity=0.353  Sum_probs=26.7

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             4867528887888999987404898736668674488337997685
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      -+||+|.-.+|||||++.++|..          ...|..|.+.+..
T Consensus        28 i~~iiGpnGaGKSTLl~~i~G~~----------~~~~~~G~I~~~g   63 (200)
T cd03217          28 VHALMGPNGSGKSTLAKTIMGHP----------KYEVTEGEILFKG   63 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHCCCC----------CCCCCCCEEEECC
T ss_conf             99999689999999999970777----------7785200799999


No 304
>KOG0462 consensus
Probab=94.24  E-value=0.087  Score=31.81  Aligned_cols=114  Identities=27%  Similarity=0.326  Sum_probs=68.4

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCH-HHHHHHHH-----CCCCEEEE---EEEEEEECC
Q ss_conf             8675288878889999874048987366686744883379976855-58777642-----18650233---579998512
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDP-RMHKLAEI-----AESKDLVP---TRMSFVDIA   75 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~-~~~~l~~~-----~~~~~~~p---~~i~~iDva   75 (367)
                      ++||--=--||||+--.|-+..         .||++|.+.-.+-|. .+.+.-.+     ..+-.+.+   -.+.++|.|
T Consensus        63 fsIIAHVDHGKSTLaDrLLe~t---------g~i~~~~~q~q~LDkl~vERERGITIkaQtasify~~~~~ylLNLIDTP  133 (650)
T KOG0462          63 FSIIAHVDHGKSTLADRLLELT---------GTIDNNIGQEQVLDKLQVERERGITIKAQTASIFYKDGQSYLLNLIDTP  133 (650)
T ss_pred             EEEEEEECCCCCHHHHHHHHHH---------CCCCCCCCHHHHHHHHHHHHHCCCEEEEEEEEEEEECCCCEEEEEECCC
T ss_conf             3799984277016899999982---------8778887556642454456652847875123799975873288750589


Q ss_pred             CCCCCCCCCCCCHHHHHHHHHCCCEEEEEECCCCCCC----------------CCCCCCCCC-CCHHHHHHHHHHH
Q ss_conf             2354322246632899998730374788501234542----------------113457767-3215788988887
Q gi|254780226|r   76 GLVRGASKGEGLGNQFLAHIREVDAIIHVLRCFKDEN----------------IIHVEGRID-PINDIETIETELM  134 (367)
Q Consensus        76 GLv~gA~~G~GlGN~FL~~ir~aDalihVVdaf~~~~----------------v~~~~g~~D-P~~Di~~i~~EL~  134 (367)
                      |-|--       ++++-.-+.-||..|.||||+..-.                ++.+-+.+| |-.|.+.++..+.
T Consensus       134 GHvDF-------s~EVsRslaac~G~lLvVDA~qGvqAQT~anf~lAfe~~L~iIpVlNKIDlp~adpe~V~~q~~  202 (650)
T KOG0462         134 GHVDF-------SGEVSRSLAACDGALLVVDASQGVQAQTVANFYLAFEAGLAIIPVLNKIDLPSADPERVENQLF  202 (650)
T ss_pred             CCCCC-------CCEEHEHHHHCCCEEEEEECCCCCHHHHHHHHHHHHHCCCEEEEEEECCCCCCCCHHHHHHHHH
T ss_conf             85555-------4100012653571599997676812889999999998597488865315789889899999999


No 305
>PRK13657 cyclic beta-1,2-glucan ABC transporter; Provisional
Probab=94.23  E-value=0.052  Score=33.34  Aligned_cols=15  Identities=13%  Similarity=0.027  Sum_probs=5.5

Q ss_pred             CCHHCCCCEEEEECC
Q ss_conf             121034836999736
Q gi|254780226|r  313 HTDFEKGFIRALTIS  327 (367)
Q Consensus       313 HtDi~kgFi~A~v~~  327 (367)
                      .=++.+|=..|+|.+
T Consensus       355 sl~i~~Ge~vaiVG~  369 (585)
T PRK13657        355 SFEAKPGQTVAIVGP  369 (585)
T ss_pred             EEEECCCCEEEEECC
T ss_conf             389759988999889


No 306
>PRK11176 lipid transporter ATP-binding/permease protein; Provisional
Probab=94.23  E-value=0.037  Score=34.29  Aligned_cols=21  Identities=43%  Similarity=0.627  Sum_probs=9.8

Q ss_pred             EEEEEECCCCCHHHHHHHHHC
Q ss_conf             486752888788899998740
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTR   24 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~   24 (367)
                      ++||||...+||||+++.+.+
T Consensus       370 ~vaiVG~SGsGKSTL~~LL~g  390 (581)
T PRK11176        370 TVALVGRSGSGKSTIANLLTR  390 (581)
T ss_pred             EEECCCCCCCCHHHHHHHHHH
T ss_conf             431228999867899999985


No 307
>PRK11701 phnK phosphonates transport ATP-binding protein; Provisional
Probab=94.22  E-value=0.049  Score=33.50  Aligned_cols=22  Identities=45%  Similarity=0.679  Sum_probs=20.1

Q ss_pred             EEEEEECCCCCHHHHHHHHHCC
Q ss_conf             4867528887888999987404
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRT   25 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~   25 (367)
                      -+||+|-..+||||++++++|.
T Consensus        34 i~~iiG~nGaGKSTLl~~i~G~   55 (258)
T PRK11701         34 VLGIVGESGSGKTTLLNALSAR   55 (258)
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             9999888998899999998567


No 308
>CHL00071 tufA elongation factor Tu
Probab=94.22  E-value=0.12  Score=30.82  Aligned_cols=89  Identities=24%  Similarity=0.282  Sum_probs=46.2

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCC---CCCCCC-----CCCEEEE-ECCCHHHHHHHHHCCCCEEEEEEEEEEE
Q ss_conf             248675288878889999874048987366---686744-----8833799-7685558777642186502335799985
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAAN---YPFCTI-----EPNSGEV-AVPDPRMHKLAEIAESKDLVPTRMSFVD   73 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~---ypFtTi-----~pn~g~~-~v~d~~~~~l~~~~~~~~~~p~~i~~iD   73 (367)
                      +.|+++|==.+||||+-.+||.. ....+.   ..|--+     +-..|+. .+       -...+...+   -.+.++|
T Consensus        13 vni~~~GHVD~GKSTL~g~L~~~-~~~~~~~~~~~~~~~D~~~eEr~rGiTid~-------~~~~~et~~---~~~~~iD   81 (409)
T CHL00071         13 VNIGTIGHVDHGKTTLTAAITMT-LAANGGAKGKKYDEIDSAPEEKARGITINT-------AHVEYETEN---RHYAHVD   81 (409)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH-HHHCCCHHHHHHHHCCCCHHHHHCCCEEEE-------CEEEEECCC---EEEEEEE
T ss_conf             99999954588399999998645-300451334315532379768736944880-------248996287---5999986


Q ss_pred             CCCCCCCCCCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             122354322246632899998730374788501234
Q gi|254780226|r   74 IAGLVRGASKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        74 vaGLv~gA~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      +||     |+  -.-..-+.=+.++|+-+.||+|.+
T Consensus        82 ~PG-----H~--~fv~nmi~Gas~aD~alLVV~A~~  110 (409)
T CHL00071         82 CPG-----HA--DYVKNMITGAAQMDGAILVVSAAD  110 (409)
T ss_pred             CCC-----HH--HHHHHHHHHHCCCCCEEEEEECCC
T ss_conf             796-----78--999998752301581289998687


No 309
>PRK12317 elongation factor 1-alpha; Reviewed
Probab=94.20  E-value=0.3  Score=28.23  Aligned_cols=86  Identities=23%  Similarity=0.313  Sum_probs=46.2

Q ss_pred             CEEEEEECCCCCHHHHHHHHH---CCCCC-----------CCCCCCCCCCCCCEEEEECCCHHHHH--------HH-HHC
Q ss_conf             248675288878889999874---04898-----------73666867448833799768555877--------76-421
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALT---RTASA-----------QAANYPFCTIEPNSGEVAVPDPRMHK--------LA-EIA   59 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT---~~~~~-----------~~~~ypFtTi~pn~g~~~v~d~~~~~--------l~-~~~   59 (367)
                      ++|+++|-=.+||||+.-+|.   |.-..           +.+.-+|       ..+.+-|...+-        ++ ..+
T Consensus         8 l~i~~~GhVD~GKSTL~G~Ll~~~g~~~~~~~~~~~~~~~~~g~~s~-------~~a~~~D~~~eEr~rGiTid~~~~~f   80 (426)
T PRK12317          8 LNLAVIGHVDHGKSTLVGRLLYETGAVDEHIIEEYEEEAKKKGKESF-------KFAWVMDRLKEERERGVTIDLAHKKF   80 (426)
T ss_pred             EEEEEEEECCCCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCC-------EEEEECCCCHHHHHCCCEEEEEEEEE
T ss_conf             49999952287688887689877299448999999989986487752-------14321257866875582788316999


Q ss_pred             CCCEEEEEEEEEEECCCCCCCCCCCCCCHHHHH----HHHHCCCEEEEEECCCC
Q ss_conf             865023357999851223543222466328999----98730374788501234
Q gi|254780226|r   60 ESKDLVPTRMSFVDIAGLVRGASKGEGLGNQFL----AHIREVDAIIHVLRCFK  109 (367)
Q Consensus        60 ~~~~~~p~~i~~iDvaGLv~gA~~G~GlGN~FL----~~ir~aDalihVVdaf~  109 (367)
                      ...+   -.+.++|+||     |+      +|+    .-+.+||+-+.||||-+
T Consensus        81 ~~~~---~~~~iiD~PG-----H~------~fi~nmi~Gas~~D~ailvV~A~~  120 (426)
T PRK12317         81 ETDK---YYFTIIDCPG-----HR------DFVKNMITGASQADAAVLVVSARD  120 (426)
T ss_pred             ECCC---CEEEEEECCC-----CH------HHHHHHHHHHCCCCEEEEEEECCC
T ss_conf             5498---1699987896-----36------678778745346772799996365


No 310
>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed
Probab=94.20  E-value=0.042  Score=33.96  Aligned_cols=18  Identities=17%  Similarity=0.023  Sum_probs=9.4

Q ss_pred             CCCCHHCCCCEEEEECCH
Q ss_conf             001210348369997368
Q gi|254780226|r  311 VIHTDFEKGFIRALTISY  328 (367)
Q Consensus       311 ~IHtDi~kgFi~A~v~~~  328 (367)
                      -|.=++.+|=.-|+|.++
T Consensus       368 ~is~~i~~Ge~vaIVG~S  385 (588)
T PRK11174        368 PLNFTLPAGQRVALVGPS  385 (588)
T ss_pred             CEEEEECCCCEEEEECCC
T ss_conf             646997499789998999


No 311
>PRK13641 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=94.19  E-value=0.051  Score=33.38  Aligned_cols=33  Identities=30%  Similarity=0.550  Sum_probs=26.3

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             486752888788899998740489873666867448833799768
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      -+||+|...+||||+++.+.+.-            .|..|.+.+.
T Consensus        35 ~~~iiG~nGsGKSTLl~~l~Gll------------~P~sG~V~i~   67 (286)
T PRK13641         35 FVALIGHTGSGKSTLMQHFNALL------------KPSSGKITIA   67 (286)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCC------------CCCCEEEEEC
T ss_conf             99999999839999999996598------------9885499999


No 312
>KOG0394 consensus
Probab=94.17  E-value=0.22  Score=29.06  Aligned_cols=150  Identities=23%  Similarity=0.292  Sum_probs=84.5

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCE--EEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCC
Q ss_conf             82486752888788899998740489873666867448833--7997685558777642186502335799985122354
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNS--GEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVR   79 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~--g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~   79 (367)
                      .+|+=|.|=|.||||+|.|..+. ..  -.+--|.||-.--  -.+.|.|             |.  +++|+-|.||   
T Consensus         9 lLKViiLGDsGVGKtSLmn~yv~-~k--F~~qykaTIgadFltKev~Vd~-------------~~--vtlQiWDTAG---   67 (210)
T KOG0394           9 LLKVIILGDSGVGKTSLMNQYVN-KK--FSQQYKATIGADFLTKEVQVDD-------------RS--VTLQIWDTAG---   67 (210)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH-HH--HHHHHCCCCCCEEEEEEEEECC-------------EE--EEEEEEECCC---
T ss_conf             35999937998447899999988-88--8887432000110322799867-------------69--9999873311---


Q ss_pred             CCCCCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHH
Q ss_conf             32224663289999873037478850123454211345776732157889888876433222457777787520320467
Q gi|254780226|r   80 GASKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEI  159 (367)
Q Consensus        80 gA~~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~  159 (367)
                       +-+=+.||-.|   -|.+|..+.|-|.-..          .-.+.++-+..|++                         
T Consensus        68 -QERFqsLg~aF---YRgaDcCvlvydv~~~----------~Sfe~L~~Wr~EFl-------------------------  108 (210)
T KOG0394          68 -QERFQSLGVAF---YRGADCCVLVYDVNNP----------KSFENLENWRKEFL-------------------------  108 (210)
T ss_pred             -HHHHHHCCCCE---ECCCCEEEEEECCCCH----------HHHCCHHHHHHHHH-------------------------
T ss_conf             -77763146411---2477547898326864----------66511878999998-------------------------


Q ss_pred             HHHHHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCC-CHHHHHHHHHHHHHC-CCCC
Q ss_conf             77899999889988758741034431326777621023576410100100343011101-013467877886436-9840
Q gi|254780226|r  160 VLLQSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKK-GNIYTEAVQRLASQQ-NAEM  237 (367)
Q Consensus       160 ~~~~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~-~n~~~e~i~~l~~~~-~~~~  237 (367)
                             ..       -.| +      +.            ...|.+++.||.|.+..+ .-.-.++...|+.++ +..+
T Consensus       109 -------~q-------a~~-~------~P------------e~FPFVilGNKiD~~~~~~r~VS~~~Aq~WC~s~gnipy  155 (210)
T KOG0394         109 -------IQ-------ASP-Q------DP------------ETFPFVILGNKIDVDGGKSRQVSEKKAQTWCKSKGNIPY  155 (210)
T ss_pred             -------HH-------CCC-C------CC------------CCCCEEEECCCCCCCCCCCCEEEHHHHHHHHHHCCCCEE
T ss_conf             -------74-------687-9------97------------756679975511477775012018899999986599506


Q ss_pred             CCCCCHH
Q ss_conf             3321002
Q gi|254780226|r  238 IIISAAI  244 (367)
Q Consensus       238 i~isa~~  244 (367)
                      .-.||+-
T Consensus       156 fEtSAK~  162 (210)
T KOG0394         156 FETSAKE  162 (210)
T ss_pred             EEECCCC
T ss_conf             8710243


No 313
>PRK13540 cytochrome c biogenesis protein CcmA; Provisional
Probab=94.16  E-value=0.051  Score=33.36  Aligned_cols=33  Identities=24%  Similarity=0.408  Sum_probs=26.2

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             486752888788899998740489873666867448833799768
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      -+||+|.-.+||||||+.++|.-            .|+.|.+.+.
T Consensus        29 i~~l~G~NGaGKSTLlkli~Gl~------------~p~~G~I~~~   61 (200)
T PRK13540         29 LLHLKGSNGAGKTTLLKLIAGLL------------NPEKGEILFE   61 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC------------CCCCCEEEEC
T ss_conf             99998899987999999997785------------8898569999


No 314
>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=94.14  E-value=0.051  Score=33.37  Aligned_cols=32  Identities=25%  Similarity=0.504  Sum_probs=25.7

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             86752888788899998740489873666867448833799768
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      +||+|.-.+||||++++++|..            .|..|.+.+-
T Consensus        29 ~~liG~nGaGKSTLl~~i~Gl~------------~p~~G~I~~~   60 (222)
T cd03224          29 VALLGRNGAGKTTLLKTIMGLL------------PPRSGSIRFD   60 (222)
T ss_pred             EEEECCCCCCHHHHHHHHHCCC------------CCCCEEEEEC
T ss_conf             9999999985999999997798------------8996099999


No 315
>KOG0054 consensus
Probab=94.13  E-value=0.052  Score=33.34  Aligned_cols=42  Identities=24%  Similarity=0.395  Sum_probs=28.2

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             82486752888788899998740489873666867448833799768
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      ++.+++||...+|||+|.+|+.|--. ....    .+..|-.+++||
T Consensus       547 G~lvaVvG~vGsGKSSLL~AiLGEm~-~~sG----~v~v~gs~aYv~  588 (1381)
T KOG0054         547 GQLVAVVGPVGSGKSSLLSAILGEMP-KLSG----SVAVNGSVAYVP  588 (1381)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCC-CCCC----EEEECCEEEEEC
T ss_conf             98899989998888999999965875-5675----599847489866


No 316
>PRK11147 ABC transporter ATPase component; Reviewed
Probab=94.10  E-value=0.069  Score=32.49  Aligned_cols=22  Identities=32%  Similarity=0.502  Sum_probs=12.1

Q ss_pred             EEEEEECCCCCHHHHHHHHHCC
Q ss_conf             4867528887888999987404
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRT   25 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~   25 (367)
                      ++||||.-.+|||||++.++|.
T Consensus       347 ~ialvG~NGsGKSTLlk~l~G~  368 (632)
T PRK11147        347 KIALIGPNGCGKTTLLKLMLGQ  368 (632)
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             7999889884277999986066


No 317
>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import.  Responsible for energy coupling to the transport system.  The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-binding protein (cysP).  ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.  The nucleotide binding domain shows the highest similarity between all members of the family.  ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=94.10  E-value=0.049  Score=33.47  Aligned_cols=34  Identities=24%  Similarity=0.467  Sum_probs=27.3

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             4867528887888999987404898736668674488337997685
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      -++|+|-..+||||+++.++|..            +|..|.+.+-+
T Consensus        30 ~~~iiGpSGsGKSTll~~i~Gl~------------~p~~G~I~~~g   63 (239)
T cd03296          30 LVALLGPSGSGKTTLLRLIAGLE------------RPDSGTILFGG   63 (239)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCC------------CCCCEEEEECC
T ss_conf             99999999977999999997699------------99863999999


No 318
>PRK10895 putative ABC transporter ATP-binding protein YhbG; Provisional
Probab=94.10  E-value=0.054  Score=33.22  Aligned_cols=33  Identities=24%  Similarity=0.532  Sum_probs=25.8

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             867528887888999987404898736668674488337997685
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      +||+|.-.+||||+++.++|..            .|..|.+.+.+
T Consensus        32 ~~liGpNGaGKSTLl~~i~Gl~------------~~~~G~I~i~g   64 (241)
T PRK10895         32 VGLLGPNGAGKTTTFYMVVGIV------------PRDAGNIIIDD   64 (241)
T ss_pred             EEEECCCCCCHHHHHHHHHCCC------------CCCCCEEEECC
T ss_conf             9998899986999999996788------------88876277634


No 319
>cd03236 ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 of RNase L inhibitor.  The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids.  RLI s are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family.  Structurally, RLIs have an N-terminal Fe-S domain and two nucleotide binding domains which are arranged to form two composite active sites in their interface cleft.  RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%.  The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.
Probab=94.08  E-value=0.05  Score=33.43  Aligned_cols=22  Identities=32%  Similarity=0.542  Sum_probs=20.0

Q ss_pred             EEEEECCCCCHHHHHHHHHCCC
Q ss_conf             8675288878889999874048
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTA   26 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~   26 (367)
                      +||+|--.+|||||++.++|.-
T Consensus        29 ~gLiGpNGaGKSTLlk~i~Gll   50 (255)
T cd03236          29 LGLVGPNGIGKSTALKILAGKL   50 (255)
T ss_pred             EEEECCCCCCHHHHHHHHHCCC
T ss_conf             9998999970999999996798


No 320
>cd03219 ABC_Mj1267_LivG_branched The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine.  MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E. coli  branched-chain amino acid transporter.  MJ1267 contains an insertion from residues 114 to 123 characteristic of LivG (Leucine-Isoleucine-Valine) homologs.  The branched-chain amino acid transporter from E. coli comprises a heterodimer of ABCs (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ).
Probab=94.05  E-value=0.053  Score=33.28  Aligned_cols=32  Identities=41%  Similarity=0.650  Sum_probs=25.5

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             86752888788899998740489873666867448833799768
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      +||+|.-.+||||++++++|..            .|..|.+.+.
T Consensus        29 ~gliG~nGaGKSTL~~~i~Gl~------------~p~~G~I~~~   60 (236)
T cd03219          29 HGLIGPNGAGKTTLFNLISGFL------------RPTSGSVLFD   60 (236)
T ss_pred             EEEECCCCCCHHHHHHHHHCCC------------CCCCEEEEEC
T ss_conf             9999899973999999996798------------7883189999


No 321
>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional
Probab=94.05  E-value=0.34  Score=27.85  Aligned_cols=76  Identities=29%  Similarity=0.526  Sum_probs=49.0

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCC-----CCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCC
Q ss_conf             248675288878889999874048987366686-----744883379976855587776421865023357999851223
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPF-----CTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGL   77 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypF-----tTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGL   77 (367)
                      |=||-.|-=--||||+-.||||..   ..-.|=     =|||  .|.++.+.|         ++     ..+-|||||| 
T Consensus         1 ~IigTAGHVDHGKTsLvkALTG~d---tDRL~EEk~RGiTId--LGFA~~~l~---------~g-----~~~g~VDVPG-   60 (615)
T PRK10512          1 MIIATAGHVDHGKTTLLQAITGVN---ADRLPEEKKRGMTID--LGYAYWPQP---------DG-----RVLGFIDVPG-   60 (615)
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCC---CCCCHHHHHHCCEEE--ECEEEEECC---------CC-----CEEEEEECCC-
T ss_conf             989963654778999999986888---656977897187277--130755579---------99-----7899987998-


Q ss_pred             CCCCCCCCCCHHHHHHH----HHCCCEEEEEECCC
Q ss_conf             54322246632899998----73037478850123
Q gi|254780226|r   78 VRGASKGEGLGNQFLAH----IREVDAIIHVLRCF  108 (367)
Q Consensus        78 v~gA~~G~GlGN~FL~~----ir~aDalihVVdaf  108 (367)
                          ||      +|+.+    +...|+.+.||.|-
T Consensus        61 ----HE------rFIknMlAG~~gid~vlLVVAAd   85 (615)
T PRK10512         61 ----HE------KFLSNMLAGVGGIDHALLVVACD   85 (615)
T ss_pred             ----HH------HHHHHHHHHHHHCCEEEEEEECC
T ss_conf             ----38------99999974464378899999889


No 322
>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain.  They export degradative enzymes by using a type I protein secretion system and  lack an N-terminal signal peptide, but contain a C-terminal secretion signal.  The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP).  For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli.  The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior.  HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels.  The spectrum of transport substra
Probab=94.03  E-value=0.063  Score=32.76  Aligned_cols=35  Identities=34%  Similarity=0.404  Sum_probs=27.5

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             24867528887888999987404898736668674488337997685
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      -.+||+|...+||||+++.+.+.-            .|..|.+.+-.
T Consensus        29 ~~vaIvG~sGsGKSTLl~ll~gl~------------~p~~G~i~i~g   63 (173)
T cd03246          29 ESLAIIGPSGSGKSTLARLILGLL------------RPTSGRVRLDG   63 (173)
T ss_pred             CEEEEECCCCCHHHHHHHHHHCCC------------CCCCCEEEECC
T ss_conf             999999999980999999996666------------67999899999


No 323
>cd03266 ABC_NatA_sodium_exporter NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake.  NatB possess six putative membrane spanning regions at its C-terminus.  In B. subtilus, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane.  The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system.  Hence, the functional NatAB is presumably assembled with two copies of a single ATP-binding protein and a single intergral membrane protein.
Probab=94.01  E-value=0.054  Score=33.19  Aligned_cols=31  Identities=32%  Similarity=0.561  Sum_probs=25.1

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEEC
Q ss_conf             8675288878889999874048987366686744883379976
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAV   47 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v   47 (367)
                      +||+|.-.+||||+++.++|.-            .|..|.+.+
T Consensus        34 ~gllG~NGaGKSTllk~i~Gl~------------~p~~G~i~i   64 (218)
T cd03266          34 TGLLGPNGAGKTTTLRMLAGLL------------EPDAGFATV   64 (218)
T ss_pred             EEEECCCCCCHHHHHHHHHCCC------------CCCCCEEEE
T ss_conf             9999999984999999997797------------789748999


No 324
>cd03297 ABC_ModC_molybdenum_transporter ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family.  ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=94.00  E-value=0.051  Score=33.38  Aligned_cols=33  Identities=30%  Similarity=0.626  Sum_probs=26.5

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             867528887888999987404898736668674488337997685
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      +||+|...+||||+++.+.|..            +|..|.+.+-.
T Consensus        26 ~~iiGpSGsGKSTll~~i~GL~------------~p~sG~I~~~G   58 (214)
T cd03297          26 TGIFGASGAGKSTLLRCIAGLE------------KPDGGTIVLNG   58 (214)
T ss_pred             EEEECCCCCHHHHHHHHHHCCC------------CCCCEEEEECC
T ss_conf             9999999735999999998499------------99964999999


No 325
>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=93.96  E-value=0.061  Score=32.83  Aligned_cols=32  Identities=31%  Similarity=0.540  Sum_probs=25.1

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             86752888788899998740489873666867448833799768
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      +||+|.-.+||||+++.++|..            .|..|.+.+-
T Consensus        31 ~~llG~NGaGKSTLl~~i~Gl~------------~p~~G~I~i~   62 (220)
T cd03263          31 FGLLGHNGAGKTTTLKMLTGEL------------RPTSGTAYIN   62 (220)
T ss_pred             EEEECCCCCCHHHHHHHHHCCC------------CCCCCCEEEC
T ss_conf             9999899973999999996698------------7889977999


No 326
>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE).  They are clustered together phylogenetically.  MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all.  An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport.  The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.
Probab=93.96  E-value=0.05  Score=33.43  Aligned_cols=34  Identities=44%  Similarity=0.576  Sum_probs=26.8

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             4867528887888999987404898736668674488337997685
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      -+||+|...+|||||++.++|..            .|+-|.+.+-+
T Consensus        32 ~~~iiG~sGsGKTTll~~i~Gl~------------~p~~G~I~~~g   65 (218)
T cd03255          32 FVAIVGPSGSGKSTLLNILGGLD------------RPTSGEVRVDG   65 (218)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCC------------CCCCEEEEECC
T ss_conf             99999999986999999996699------------99964999999


No 327
>TIGR02857 CydD ABC transporter, CydDC cysteine exporter (CydDC-E) family, permease/ATP-binding protein CydD; InterPro: IPR014216   The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain and a C-terminal ATP-binding domain. In Escherichia 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 the 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 entry are all either found in the gammaproteobacterial context, or the CydABCD context. All members of this entry scoring above the trusted cut off at the time of its creation were from genomes which encode a cytochrome bd complex. Unfortunately, the gene symbol nomenclature, based on this operon in Bacillus subtilis, assigns cydC to the third gene in the operon, where this gene is actually homologous to the E. coli cydD gene. We have chosen to name all homologues in this family in accordance with the precedence of publication of the E. coli name, CydD..
Probab=93.94  E-value=0.079  Score=32.11  Aligned_cols=32  Identities=38%  Similarity=0.647  Sum_probs=27.5

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEEC
Q ss_conf             48675288878889999874048987366686744883379976
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAV   47 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v   47 (367)
                      +++|+|...+||||+.|+|-|..            +|.-|.+.|
T Consensus       380 ~vAl~G~SGaGKSTLL~lLLGf~------------~P~~G~i~v  411 (570)
T TIGR02857       380 RVALVGPSGAGKSTLLNLLLGFV------------EPTEGAIVV  411 (570)
T ss_pred             EEEEEECCCCCHHHHHHHHHCCC------------CCCCCEEEE
T ss_conf             48886279997889999997157------------644646887


No 328
>cd03234 ABCG_White The White subfamily represents ABC transporters homologous to the Drosophila white gene, which acts as a dimeric importer for eye pigment precursors.  The eye pigmentation of Drosophila is developed from the synthesis and deposition in the cells of red pigments, which are synthesized from guanine, and brown pigments, which are synthesized from tryptophan.  The pigment precursors are encoded by the white, brown, and scarlet genes, respectively.  Evidence from genetic and biochemical studies suggest that the White and Brown proteins function as heterodimers to import guanine, while the White and Scarlet proteins function to import tryptophan.  However, a recent study also suggests that White may be involved in the transport of a metabolite, such as 3-hydroxykynurenine, across intracellular membranes.  Mammalian ABC transporters belonging to the White subfamily (ABCG1, ABCG5, and ABCG8) have been shown to be involved in the regulation of lipid-trafficking mechanisms in 
Probab=93.92  E-value=0.044  Score=33.82  Aligned_cols=22  Identities=32%  Similarity=0.554  Sum_probs=20.1

Q ss_pred             EEEEEECCCCCHHHHHHHHHCC
Q ss_conf             4867528887888999987404
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRT   25 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~   25 (367)
                      -+||+|...+|||||+++++|.
T Consensus        35 ~~~ilGpnGsGKSTLl~~i~G~   56 (226)
T cd03234          35 VMAILGSSGSGKTTLLDAISGR   56 (226)
T ss_pred             EEEEECCCCCHHHHHHHHHHCC
T ss_conf             9999989996099999999678


No 329
>KOG0057 consensus
Probab=93.91  E-value=0.047  Score=33.62  Aligned_cols=20  Identities=40%  Similarity=0.582  Sum_probs=7.6

Q ss_pred             EEEEEECCCCCHHHHHHHHH
Q ss_conf             48675288878889999874
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALT   23 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT   23 (367)
                      |+||||.+.+||||+.++|=
T Consensus       380 kVaIvG~nGsGKSTilr~Ll  399 (591)
T KOG0057         380 KVAIVGSNGSGKSTILRLLL  399 (591)
T ss_pred             EEEEECCCCCCHHHHHHHHH
T ss_conf             89897899987889999999


No 330
>PRK09544 znuC high-affinity zinc transporter ATPase; Reviewed
Probab=93.86  E-value=0.063  Score=32.75  Aligned_cols=23  Identities=26%  Similarity=0.322  Sum_probs=20.6

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCC
Q ss_conf             48675288878889999874048
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTA   26 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~   26 (367)
                      .+||+|.-.+||||++++++|.-
T Consensus        32 i~~LiGpNGaGKSTLlk~I~Gl~   54 (251)
T PRK09544         32 ILTLLGPNGAGKSTLVRVVLGLV   54 (251)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC
T ss_conf             99999899988999999996688


No 331
>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional
Probab=93.83  E-value=0.065  Score=32.66  Aligned_cols=33  Identities=30%  Similarity=0.363  Sum_probs=26.2

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             486752888788899998740489873666867448833799768
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      .+||+|...+|||||++.++|.-            .|..|.+.+.
T Consensus        35 ~~~i~G~sGsGKSTLlk~i~gl~------------~p~~G~I~~~   67 (225)
T PRK10247         35 FKLITGPSGCGKSTLLKIVASLI------------SPTSGTLLFE   67 (225)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC------------CCCCCEEEEC
T ss_conf             99999999999999999996466------------8887659999


No 332
>cd03220 ABC_KpsT_Wzt ABC_KpsT_Wzt   The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export.  Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and teichoic acids have been shown to be exported by ABC transporters.  A typical system is made of a conserved integral membrane and an ABC.  In addition to these proteins, capsular polysaccharide exporter systems require two 'accessory' proteins to perform their function: a periplasmic (E.coli) or a lipid-anchored outer membrane protein called OMA (Neisseria meningitidis and Haemophilus influenzae) and a cytoplasmic membrane protein MPA2.
Probab=93.81  E-value=0.063  Score=32.74  Aligned_cols=32  Identities=44%  Similarity=0.685  Sum_probs=25.4

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEEC
Q ss_conf             48675288878889999874048987366686744883379976
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAV   47 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v   47 (367)
                      -+||+|...+||||+++.++|...            |..|.+.+
T Consensus        50 ivgilG~NGaGKSTLl~~i~Gl~~------------p~~G~I~i   81 (224)
T cd03220          50 RIGLIGRNGAGKSTLLRLLAGIYP------------PDSGTVTV   81 (224)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCCC------------CCCCEEEE
T ss_conf             999997999819999999975877------------78776999


No 333
>PRK12736 elongation factor Tu; Reviewed
Probab=93.81  E-value=0.12  Score=30.85  Aligned_cols=78  Identities=28%  Similarity=0.440  Sum_probs=46.3

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCC-----CCCCCC-----------CCCCCCEEEEECCCHHHHHHHHHCCCCEEEE
Q ss_conf             248675288878889999874048987-----366686-----------7448833799768555877764218650233
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQ-----AANYPF-----------CTIEPNSGEVAVPDPRMHKLAEIAESKDLVP   66 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~-----~~~ypF-----------tTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p   66 (367)
                      +.||++|==.+||||+-.+||+. ..+     ...|-.           -||+  +|.++.            ...+   
T Consensus        13 ~ni~~~GHVD~GKSTL~g~L~~~-~~~~~~~~~~~~~~~D~~~eEr~rGiTid--~~~~~~------------~t~~---   74 (394)
T PRK12736         13 VNIGTIGHVDHGKTTLTAAITKV-LAERGLAQAKDYASIDAAPEEKARGITIN--TAHVEY------------ETEK---   74 (394)
T ss_pred             EEEEEEEECCCCHHHHHHHHHHH-HHHCCCCHHHHHHHHCCCHHHHCCCCEEE--EEEEEE------------ECCC---
T ss_conf             49999951288489899897504-54506510222233116655624782178--418999------------7288---


Q ss_pred             EEEEEEECCCCCCCCCCCCCCHHHHHHH----HHCCCEEEEEECCCC
Q ss_conf             5799985122354322246632899998----730374788501234
Q gi|254780226|r   67 TRMSFVDIAGLVRGASKGEGLGNQFLAH----IREVDAIIHVLRCFK  109 (367)
Q Consensus        67 ~~i~~iDvaGLv~gA~~G~GlGN~FL~~----ir~aDalihVVdaf~  109 (367)
                      -.+.++|+||     |+      +|+.+    ..++|+-+.||+|.+
T Consensus        75 ~~~~~iD~PG-----H~------~fi~nmi~Ga~~~D~alLVV~A~~  110 (394)
T PRK12736         75 RHYAHVDCPG-----HA------DYVKNMITGAAQMDGAILVVAATD  110 (394)
T ss_pred             EEEEEEECCC-----CH------HHHCCEEEEECCCCEEEEEEECCC
T ss_conf             3699988897-----25------431104443534665899998587


No 334
>PRK00081 coaE dephospho-CoA kinase; Reviewed
Probab=93.80  E-value=0.056  Score=33.11  Aligned_cols=24  Identities=33%  Similarity=0.382  Sum_probs=22.1

Q ss_pred             CCCEEEEEECCCCCHHHHHHHHHC
Q ss_conf             982486752888788899998740
Q gi|254780226|r    1 MGFKCGIIGLPNVGKSTLFNALTR   24 (367)
Q Consensus         1 m~~kiGlvG~pn~GKST~f~alT~   24 (367)
                      |-|+|||.|...+||||+-+.+..
T Consensus         1 ~m~~IgiTG~igsGKStv~~~l~~   24 (199)
T PRK00081          1 MMLIIGLTGGIGSGKSTVANIFAE   24 (199)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
T ss_conf             978999578887779999999998


No 335
>PRK13544 consensus
Probab=93.78  E-value=0.066  Score=32.63  Aligned_cols=33  Identities=21%  Similarity=0.274  Sum_probs=26.0

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             486752888788899998740489873666867448833799768
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      .+||+|.-.+||||++++++|..            .|..|.+.+-
T Consensus        29 i~~l~G~NGsGKSTLl~~i~Gl~------------~p~~G~I~~~   61 (208)
T PRK13544         29 LTLVIGNNGSGKTSLLRLLAGLI------------PITHGNIKYN   61 (208)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC------------CCCCCEEEEC
T ss_conf             99999999998999999995880------------6897489999


No 336
>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity.  In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins.  Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family.  The ATP-binding domain shows the highest similarity between all members of the ABC transporter family.  ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=93.75  E-value=0.066  Score=32.63  Aligned_cols=32  Identities=34%  Similarity=0.621  Sum_probs=25.1

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             86752888788899998740489873666867448833799768
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      +||+|.-.+||||+++.++|..            .|..|.+.+-
T Consensus        29 ~gl~G~NGaGKSTLl~~i~Gl~------------~p~~G~i~i~   60 (173)
T cd03230          29 YGLLGPNGAGKTTLIKIILGLL------------KPDSGEIKVL   60 (173)
T ss_pred             EEEECCCCCCHHHHHHHHHCCC------------CCCCCEEEEC
T ss_conf             9998789979999999997685------------7787889999


No 337
>PRK09700 D-allose transporter ATP-binding protein; Provisional
Probab=93.75  E-value=0.049  Score=33.49  Aligned_cols=33  Identities=27%  Similarity=0.552  Sum_probs=25.8

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             867528887888999987404898736668674488337997685
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      +||+|.-.+|||||+++++|..       |     |..|.+.+..
T Consensus        34 ~~liG~nGaGKSTL~~~l~G~~-------~-----~~~G~i~~~g   66 (510)
T PRK09700         34 HALLGENGAGKSTLMKVLSGIH-------E-----PTKGTITINN   66 (510)
T ss_pred             EEEECCCCCHHHHHHHHHHCCC-------C-----CCCEEEEECC
T ss_conf             9998999972999999983799-------8-----9856999999


No 338
>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids.  RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family.  Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft.  RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%.  The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.
Probab=93.74  E-value=0.073  Score=32.34  Aligned_cols=25  Identities=28%  Similarity=0.379  Sum_probs=21.4

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCC
Q ss_conf             4867528887888999987404898
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASA   28 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~   28 (367)
                      -+||+|-..+|||||++.++|.-.+
T Consensus        27 iv~ilGpNGaGKSTllk~i~G~l~p   51 (177)
T cd03222          27 VIGIVGPNGTGKTTAVKILAGQLIP   51 (177)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCCC
T ss_conf             9999899999999999999688678


No 339
>pfam04317 DUF463 YcjX-like family, DUF463. Some members of this family are thought to possess an ATP-binding domain towards their N-terminus.
Probab=93.73  E-value=0.16  Score=30.01  Aligned_cols=33  Identities=18%  Similarity=0.448  Sum_probs=25.2

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCC---CCCCCC
Q ss_conf             2486752888788899998740489873---666867
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQA---ANYPFC   36 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~---~~ypFt   36 (367)
                      +++|+.|+..+|||-|.+++.. ..-..   ++.|+=
T Consensus         1 ~RlgVTGLSrsGKTvFITsLv~-~Ll~~~~~~~lp~f   36 (443)
T pfam04317         1 VRLAVTGLSRAGKTAFITSLVN-QLLHGGNGGRLPLF   36 (443)
T ss_pred             CEEEEECCCCCCCCHHHHHHHH-HHHHCCCCCCCCCC
T ss_conf             9367732577875007999999-99714567888652


No 340
>cd03299 ABC_ModC_like Archeal protein closely related to ModC.  ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB.  ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.  The nucleotide binding domain shows the highest similarity between all members of the family.  ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=93.71  E-value=0.064  Score=32.71  Aligned_cols=34  Identities=26%  Similarity=0.464  Sum_probs=26.9

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             4867528887888999987404898736668674488337997685
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      -++|+|-..+||||+++.+.|..            .|..|.+.+..
T Consensus        27 ~~~iiGpSGsGKSTLlr~i~Gl~------------~p~~G~I~~~G   60 (235)
T cd03299          27 YFVILGPTGSGKSVLLETIAGFI------------KPDSGKILLNG   60 (235)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCC------------CCCCEEEEECC
T ss_conf             99999999635999999997499------------99965999999


No 341
>PRK10771 thiQ thiamine transporter ATP-binding subunit; Provisional
Probab=93.70  E-value=0.065  Score=32.66  Aligned_cols=33  Identities=33%  Similarity=0.557  Sum_probs=26.0

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             486752888788899998740489873666867448833799768
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      .+||+|...+||||+++.++|.-            .|..|.+.+-
T Consensus        27 ~v~iiG~nGaGKSTLl~~i~Gll------------~p~sG~I~i~   59 (233)
T PRK10771         27 QVAILGPSGAGKSTLLNLIAGFL------------TPASGSLLIN   59 (233)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCC------------CCCCEEEEEC
T ss_conf             99999999981999999996599------------9985599999


No 342
>TIGR03411 urea_trans_UrtD urea ABC transporter, ATP-binding protein UrtD. Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.
Probab=93.68  E-value=0.063  Score=32.74  Aligned_cols=32  Identities=31%  Similarity=0.513  Sum_probs=25.3

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             86752888788899998740489873666867448833799768
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      +||+|.-.+||||+|++++|...            |..|.+.+-
T Consensus        31 ~~liGpNGaGKSTLl~~i~Gl~~------------p~~G~I~~~   62 (242)
T TIGR03411        31 RVIIGPNGAGKTTMMDVITGKTR------------PDEGSVLFG   62 (242)
T ss_pred             EEEECCCCCCHHHHHHHHHCCCC------------CCCEEEEEC
T ss_conf             99998999759999999967957------------885599999


No 343
>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional
Probab=93.68  E-value=0.058  Score=32.99  Aligned_cols=34  Identities=35%  Similarity=0.494  Sum_probs=26.7

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             4867528887888999987404898736668674488337997685
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      -+||+|...+||||+++.++|..            .|..|.+.+..
T Consensus        38 ~v~ivG~sGsGKSTLl~~i~Gl~------------~p~~G~I~~~G   71 (228)
T PRK10584         38 TIALIGESGSGKSTLLAILAGLD------------DGSSGEVSLVG   71 (228)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCC------------CCCCEEEEECC
T ss_conf             99999999858999999996699------------99967999999


No 344
>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]
Probab=93.65  E-value=0.18  Score=29.67  Aligned_cols=61  Identities=20%  Similarity=0.336  Sum_probs=36.0

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCC-----E----EEEECCCHHHHHHHHHCCCCEEEEEEEEEE
Q ss_conf             8248675288878889999874048987366686744883-----3----799768555877764218650233579998
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPN-----S----GEVAVPDPRMHKLAEIAESKDLVPTRMSFV   72 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn-----~----g~~~v~d~~~~~l~~~~~~~~~~p~~i~~i   72 (367)
                      .+.+=++|-.+.|||||||.|-+...  +.+..+-.+.|+     +    -.+.+.+             .-++.++.++
T Consensus        23 ~f~im~~G~sG~GKttfiNtL~~~~l--~~~~~~~~~~~~~~~~~~~i~~~~~~l~e-------------~~~~~~l~vI   87 (373)
T COG5019          23 DFTIMVVGESGLGKTTFINTLFGTSL--VDETEIDDIRAEGTSPTLEIKITKAELEE-------------DGFHLNLTVI   87 (373)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHC--CCCCCCCCCCCCCCCCCEEEEEEEEEEEC-------------CCEEEEEEEE
T ss_conf             63899962788755578876567652--57777557666667762588864316604-------------8748988886


Q ss_pred             ECCCC
Q ss_conf             51223
Q gi|254780226|r   73 DIAGL   77 (367)
Q Consensus        73 DvaGL   77 (367)
                      |+||-
T Consensus        88 DtpGf   92 (373)
T COG5019          88 DTPGF   92 (373)
T ss_pred             CCCCC
T ss_conf             15886


No 345
>PRK04004 translation initiation factor IF-2; Validated
Probab=93.63  E-value=0.41  Score=27.25  Aligned_cols=88  Identities=25%  Similarity=0.334  Sum_probs=62.6

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHC----CCCEEEEEEEEEEECCCCCCC
Q ss_conf             8675288878889999874048987366686744883379976855587776421----865023357999851223543
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIA----ESKDLVPTRMSFVDIAGLVRG   80 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~----~~~~~~p~~i~~iDvaGLv~g   80 (367)
                      |-+.|-=-.|||||+-++-++   .++.-....|-.++|...||-+...+.+...    +-+-.+| .|-|+|.||    
T Consensus         8 vtimGHVDhGKTsLLD~iR~t---~V~~~EaGGITQhIGA~~v~~~~~~~~~~~~~~~~~~~~~ip-gllfiDTPG----   79 (592)
T PRK04004          8 VVVLGHVDHGKTTLLDKIRGT---AVAAKEAGGITQHIGATEVPIDVIEKIAGPLVKRLPLKLKIP-GLLFIDTPG----   79 (592)
T ss_pred             EEEECCCCCCHHHHHHHHHCC---CCCCCCCCCCCCEECEEEECCCCHHHHCCCCCCCCCCCCCCC-CCEEECCCC----
T ss_conf             999787377763689998628---773555776232306598412310110344334433234567-755765996----


Q ss_pred             CCCCCCCHHHHHHHHH-----CCCEEEEEECCC
Q ss_conf             2224663289999873-----037478850123
Q gi|254780226|r   81 ASKGEGLGNQFLAHIR-----EVDAIIHVLRCF  108 (367)
Q Consensus        81 A~~G~GlGN~FL~~ir-----~aDalihVVdaf  108 (367)
                              -+-...+|     -||..|.|||+-
T Consensus        80 --------HeaFt~mR~RGa~vtDiaILVVa~~  104 (592)
T PRK04004         80 --------HEAFSNLRKRGGALADIAILVVDIN  104 (592)
T ss_pred             --------HHHHHHHHHHCCCCCCEEEEEEECC
T ss_conf             --------5999999973674578899999778


No 346
>PRK08356 hypothetical protein; Provisional
Probab=93.62  E-value=0.056  Score=33.08  Aligned_cols=23  Identities=30%  Similarity=0.378  Sum_probs=20.0

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHC
Q ss_conf             82486752888788899998740
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTR   24 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~   24 (367)
                      +|=|||+|+|.+||||+-+-+-.
T Consensus         5 kmIIgitG~~gSGK~tva~~l~~   27 (195)
T PRK08356          5 KMIVGIAGKIAAGKTTVAKFLEE   27 (195)
T ss_pred             EEEEEEECCCCCCHHHHHHHHHH
T ss_conf             26999858998878999999998


No 347
>PRK00007 elongation factor G; Reviewed
Probab=93.61  E-value=0.26  Score=28.62  Aligned_cols=89  Identities=19%  Similarity=0.168  Sum_probs=52.6

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEE----CCCHH---HHHHHHH-----CCCCEEEEEEEEE
Q ss_conf             4867528887888999987404898736668674488337997----68555---8777642-----1865023357999
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVA----VPDPR---MHKLAEI-----AESKDLVPTRMSF   71 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~----v~d~~---~~~l~~~-----~~~~~~~p~~i~~   71 (367)
                      .|||+|---+|||||--++--.+  .+-+.        .|.+.    +-|.+   -.+--.+     .-.|+- ..+|.|
T Consensus        12 Ni~IiaHvd~GKTTL~e~lL~~s--g~i~~--------~G~v~~g~t~~D~~~~E~eRgITI~s~~~s~~~~~-~~~iNl   80 (693)
T PRK00007         12 NIGIMAHIDAGKTTTTERILFYT--GVSHK--------IGEVHDGAATMDWMEQEQERGITITSAATTCFWKD-GHRINI   80 (693)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHC--CCCCC--------CCEECCCCCCCCCCHHHHHCCCCEEECEEEEEECC-CEEEEE
T ss_conf             99999169999899999999966--98465--------84243898556782889976988732225488269-738999


Q ss_pred             EECCCCCCCCCCCCCCHHHHHHHHHCCCEEEEEECCCCC
Q ss_conf             851223543222466328999987303747885012345
Q gi|254780226|r   72 VDIAGLVRGASKGEGLGNQFLAHIREVDAIIHVLRCFKD  110 (367)
Q Consensus        72 iDvaGLv~gA~~G~GlGN~FL~~ir~aDalihVVdaf~~  110 (367)
                      +|.||-+--.+       +.-..+|=||.-+.||||.+.
T Consensus        81 IDTPGHvDF~~-------Ev~~aLrv~DgAvlVvDav~G  112 (693)
T PRK00007         81 IDTPGHVDFTI-------EVERSLRVLDGAVAVFCAVGG  112 (693)
T ss_pred             EECCCCCCHHH-------HHHHHHHHHCEEEEEEECCCC
T ss_conf             91979752489-------999999985868999988988


No 348
>CHL00131 ycf16 sulfate ABC transporter protein; Validated
Probab=93.61  E-value=0.054  Score=33.21  Aligned_cols=36  Identities=22%  Similarity=0.261  Sum_probs=26.0

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             4867528887888999987404898736668674488337997685
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      -+||+|...+|||||+++++|.          ....|.-|.+.+..
T Consensus        34 i~aiiG~nGsGKSTL~~~i~G~----------~~~~~~~G~I~~~G   69 (252)
T CHL00131         34 IHAIMGPNGSGKSTLSKVIAGH----------PAYTVLEGDILFKG   69 (252)
T ss_pred             EEEEECCCCCCHHHHHHHHCCC----------CCCCCCCCEEEECC
T ss_conf             9999999999999999997278----------76676642599877


No 349
>PRK13548 hmuV hemin importer ATP-binding subunit; Provisional
Probab=93.59  E-value=0.072  Score=32.35  Aligned_cols=32  Identities=44%  Similarity=0.613  Sum_probs=24.9

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             86752888788899998740489873666867448833799768
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      +||+|.-.+|||||+++++|.-            .|..|.+.+.
T Consensus        31 ~~liGpNGaGKSTLlk~i~Gl~------------~p~~G~I~~~   62 (257)
T PRK13548         31 VAILGPNGAGKSTLLRALSGEL------------PPSSGEVRLF   62 (257)
T ss_pred             EEEECCCCCCHHHHHHHHHCCC------------CCCCCEEEEE
T ss_conf             9999999987999999985675------------7787569993


No 350
>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional
Probab=93.59  E-value=0.35  Score=27.72  Aligned_cols=94  Identities=23%  Similarity=0.294  Sum_probs=50.1

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCC-----CCCCCCCEEEEE-----CCC---HHHH-----------HHHHH
Q ss_conf             24867528887888999987404898736668-----674488337997-----685---5587-----------77642
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYP-----FCTIEPNSGEVA-----VPD---PRMH-----------KLAEI   58 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~yp-----FtTi~pn~g~~~-----v~d---~~~~-----------~l~~~   58 (367)
                      +-||.+|-=.-|||||-.|||+. ..  ..|+     --||+  .|++.     |++   |...           .+..|
T Consensus        38 vNIGtiGHVDHGKTTLvkALTgv-~t--~r~~eE~~RgiTI~--LGya~~kiykc~~~~~p~~y~~~~s~~~~~~~c~~c  112 (460)
T PTZ00327         38 INIGTIGHVAHGKSTVVKALSGV-KT--VRFHREKVRNITIK--LGYANAKIYKCTKCPPPACYKSYPSSKPDNPQCPGC  112 (460)
T ss_pred             EEEEEECCCCCCHHHHHHHHHCC-CH--HHCHHHHHCCCEEE--ECCCCEEEECCCCCCCCCCEECCCCCCCCCCCCCCC
T ss_conf             18988746289899999998677-50--10656787587212--054330111365677631010146666555445555


Q ss_pred             CCCCEEEEEEEEEEECCCCCCCCCCCCCCHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             186502335799985122354322246632899998730374788501234
Q gi|254780226|r   59 AESKDLVPTRMSFVDIAGLVRGASKGEGLGNQFLAHIREVDAIIHVLRCFK  109 (367)
Q Consensus        59 ~~~~~~~p~~i~~iDvaGLv~gA~~G~GlGN~FL~~ir~aDalihVVdaf~  109 (367)
                      ..... .--.+-++|.||     |+  -+=.--|+-....|+-|.||.|-+
T Consensus       113 ~~~~t-~~Rh~s~VDcPG-----H~--~l~~nmi~Ga~~mD~aiLvvaa~e  155 (460)
T PTZ00327        113 GHKMT-LKRHVSFVDCPG-----HD--ILMATMLNGAAVMDAALLLIAANE  155 (460)
T ss_pred             CCCCC-CCEEEEEEECCC-----HH--HHHHHHHHCHHHCCEEEEEEECCC
T ss_conf             65431-220489986898-----79--999998747633767999998688


No 351
>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional
Probab=93.57  E-value=0.068  Score=32.54  Aligned_cols=24  Identities=29%  Similarity=0.445  Sum_probs=21.0

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCC
Q ss_conf             486752888788899998740489
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTAS   27 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~   27 (367)
                      -+||+|.-.+||||+++.++|...
T Consensus        40 iv~LiG~nGaGKSTLlr~i~Gl~~   63 (257)
T PRK11247         40 FVAVVGRSGCGKSTLLRLLAGLET   63 (257)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCCC
T ss_conf             999998998889999999965898


No 352
>PTZ00336 elongation factor 1-alpha; Provisional
Probab=93.57  E-value=0.6  Score=26.14  Aligned_cols=82  Identities=18%  Similarity=0.268  Sum_probs=47.0

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCC-------------------CCCCCCCCC----CC------CEEEEECCCHHH
Q ss_conf             8248675288878889999874048987-------------------366686744----88------337997685558
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQ-------------------AANYPFCTI----EP------NSGEVAVPDPRM   52 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~-------------------~~~ypFtTi----~p------n~g~~~v~d~~~   52 (367)
                      .+.|+++|-=.+||||+..+|.- ..-.                   .-.|.|.+-    |-      ++|..+.     
T Consensus         7 ~lni~~~GhVD~GKSTL~G~Ll~-~~~~v~~~~l~~~~~~~~~~g~~s~~~a~~~D~~~~Er~rGiTid~~~~~f-----   80 (449)
T PTZ00336          7 HMNLVVVGHVDAGKSTATGHLIY-KCGGIDKRTIEKFEKEAAEIGKASFKYAWVLDKLKAERERGITIDIALWKF-----   80 (449)
T ss_pred             EEEEEEEECCCCCHHHHHHHHHH-HCCCCCHHHHHHHHHHHHHHCCCCHHHHHHHCCCHHHHCCCEEEEEEEEEE-----
T ss_conf             43999992778968888999998-748847899999999998718751432545127722322875898679999-----


Q ss_pred             HHHHHHCCCCEEEEEEEEEEECCCCCCCCCCCCCCHHHHHH----HHHCCCEEEEEECCCCC
Q ss_conf             77764218650233579998512235432224663289999----87303747885012345
Q gi|254780226|r   53 HKLAEIAESKDLVPTRMSFVDIAGLVRGASKGEGLGNQFLA----HIREVDAIIHVLRCFKD  110 (367)
Q Consensus        53 ~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~G~GlGN~FL~----~ir~aDalihVVdaf~~  110 (367)
                            ..++    -.+.++|+||     |      .+|+.    -+.++|+-|.||||...
T Consensus        81 ------~t~~----~~~~iiD~PG-----H------~~fi~nmi~Gas~aD~aiLVVdA~~G  121 (449)
T PTZ00336         81 ------ESPK----SVFTIIDAPG-----H------RDFIKNMITGTSQADAAILMIDSTHG  121 (449)
T ss_pred             ------ECCC----EEEEEEECCC-----H------HHHHHHHHHHHCCCCEEEEEEECCCC
T ss_conf             ------7498----4899986894-----6------88899999765006767999987877


No 353
>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome.  The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation.  To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes.  X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family.  The disease is characterized by a striking and unpredictable variation in phenotypic expression.  Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt
Probab=93.56  E-value=0.08  Score=32.06  Aligned_cols=23  Identities=39%  Similarity=0.440  Sum_probs=20.6

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCC
Q ss_conf             24867528887888999987404
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRT   25 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~   25 (367)
                      =+++|+|...+||||+++++.|.
T Consensus        28 e~v~i~G~sGsGKSTLl~~l~Gl   50 (166)
T cd03223          28 DRLLITGPSGTGKSSLFRALAGL   50 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHCCC
T ss_conf             99999958999889999998698


No 354
>COG1131 CcmA ABC-type multidrug transport system, ATPase component [Defense mechanisms]
Probab=93.56  E-value=0.13  Score=30.71  Aligned_cols=33  Identities=36%  Similarity=0.617  Sum_probs=26.1

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             867528887888999987404898736668674488337997685
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      .||+|-..+||||+++.++|..            .|.-|.+.+..
T Consensus        34 ~gllG~NGAGKTTllk~l~Gl~------------~p~~G~i~i~G   66 (293)
T COG1131          34 FGLLGPNGAGKTTLLKILAGLL------------KPTSGEILVLG   66 (293)
T ss_pred             EEEECCCCCCHHHHHHHHHCCC------------CCCCEEEEECC
T ss_conf             9998999998999999996797------------78864999958


No 355
>PRK10636 putative ABC transporter ATP-binding protein; Provisional
Probab=93.54  E-value=0.083  Score=31.96  Aligned_cols=20  Identities=40%  Similarity=0.630  Sum_probs=8.7

Q ss_pred             EEEEECCCCCHHHHHHHHHC
Q ss_conf             86752888788899998740
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTR   24 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~   24 (367)
                      +||||.-.+|||||++.++|
T Consensus       341 iaIvG~NGsGKSTLlk~L~G  360 (638)
T PRK10636        341 IGLLGRNGAGKSTLIKLLAG  360 (638)
T ss_pred             EEEECCCCCCHHHHHHHHCC
T ss_conf             99974787138899999728


No 356
>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota.  The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed.  The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways.  Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO.  Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.
Probab=93.53  E-value=0.078  Score=32.15  Aligned_cols=34  Identities=24%  Similarity=0.336  Sum_probs=26.6

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             4867528887888999987404898736668674488337997685
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      -+||+|.-.+|||||++.++|.-            .|..|.+.+..
T Consensus        28 i~~iiG~nGaGKSTLl~~i~Gl~------------~p~~G~I~~~g   61 (205)
T cd03226          28 IIALTGKNGAGKTTLAKILAGLI------------KESSGSILLNG   61 (205)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC------------CCCCCEEEECC
T ss_conf             99998899998999999995685------------77787389999


No 357
>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor.  The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids.  RLI's are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family.  Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains which are arranged to form two composite active sites in their interface cleft.  RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity of more than 48%.  The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.
Probab=93.50  E-value=0.069  Score=32.48  Aligned_cols=32  Identities=28%  Similarity=0.674  Sum_probs=25.2

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             86752888788899998740489873666867448833799768
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      +||+|.-.+|||||++.++|.-            .|.-|.+.+.
T Consensus        28 v~liGpNGaGKSTLlk~l~Gll------------~p~~G~I~~~   59 (246)
T cd03237          28 IGILGPNGIGKTTFIKMLAGVL------------KPDEGDIEIE   59 (246)
T ss_pred             EEEECCCCCHHHHHHHHHHCCC------------CCCCCEEEEC
T ss_conf             9999799976999999997787------------8886079989


No 358
>PRK10575 iron-hydroxamate transporter ATP-binding subunit; Provisional
Probab=93.48  E-value=0.075  Score=32.24  Aligned_cols=23  Identities=43%  Similarity=0.611  Sum_probs=20.2

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCC
Q ss_conf             48675288878889999874048
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTA   26 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~   26 (367)
                      -+||+|.-.+||||+++.+++..
T Consensus        39 ~~~liG~NGaGKSTLl~~l~gl~   61 (265)
T PRK10575         39 VTGLIGHNGSGKSTLLKMLGRHQ   61 (265)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCC
T ss_conf             99999999980999999995688


No 359
>cd03231 ABC_CcmA_heme_exporter CcmA, the ATP-binding component of the bacterial CcmAB transporter.  The CCM family is involved in bacterial cytochrome c biogenesis.  Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH).  CcmE is a periplasmic heme chaperone that binds heme covalently and transfers it onto apocytochrome c in the presence of CcmF, CcmG, and CcmH.  The CcmAB proteins represent an ABC transporter and the CcmCD proteins participate in heme transfer to CcmE.
Probab=93.47  E-value=0.079  Score=32.09  Aligned_cols=34  Identities=26%  Similarity=0.407  Sum_probs=25.9

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             4867528887888999987404898736668674488337997685
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      -+||+|.-.+|||||++.++|...            |..|.+.+..
T Consensus        28 ~~~l~G~NGsGKSTLlk~i~Gl~~------------p~sG~i~~~g   61 (201)
T cd03231          28 ALQVTGPNGSGKTTLLRILAGLSP------------PLAGRVLLNG   61 (201)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCC------------CCCEEEEECC
T ss_conf             999999999999999999966778------------8852999999


No 360
>cd03260 ABC_PstB_phosphate_transporter Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient.  The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes.  The PstS protein is a phosphate-binding protein located in the periplasmic space. P stA and PstC are hydrophobic and they form the transmembrane portion of the Pst system.  PstB is the catalytic subunit, which couples the energy of ATP hydrolysis to the import of phosphate across cellular membranes through the Pst system, often referred as ABC-protein.  PstB belongs to one of the largest superfamilies of proteins characterized by a highly conserved adenosine triphosphate (ATP) binding cassette (ABC), which is also a nucleotide binding domain (NBD).
Probab=93.43  E-value=0.11  Score=31.03  Aligned_cols=39  Identities=33%  Similarity=0.459  Sum_probs=27.7

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             4867528887888999987404898736668674488337997685
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      -+||+|...+|||||++.++++-...       .-.|..|.+.+..
T Consensus        28 ~~~iiG~SGsGKSTll~~i~gL~~~~-------~~~p~~G~I~~~g   66 (227)
T cd03260          28 ITALIGPSGCGKSTLLRLLNRLNDLI-------PGAPDEGEVLLDG   66 (227)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHCC-------CCCCCCEEEEECC
T ss_conf             99999999981999999997445026-------8998146999999


No 361
>KOG1249 consensus
Probab=93.41  E-value=0.052  Score=33.31  Aligned_cols=45  Identities=40%  Similarity=0.496  Sum_probs=32.1

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCC-----------CCCCCCCCCCCCCCEEEEECCC
Q ss_conf             86752888788899998740489-----------8736668674488337997685
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTAS-----------AQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~-----------~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      +=++|-.|+||||+||+++.+..           |-+.+.|=|||.|+.=-+-+|-
T Consensus       216 f~lvg~tnvgks~~fn~ll~sD~c~~~~p~lVd~aT~~dwpgTtlsllkfpv~~p~  271 (572)
T KOG1249         216 FYLVGATNVGKSTLFNALLESDLCSVNAPKLVDRATISDWPGTTLSLLKFPVLVPH  271 (572)
T ss_pred             EEEEEECCCCHHHHHHHHHHHCCCCCCCCCEEEEEECCCCCCCCCCHHHCCCCCCC
T ss_conf             44321000240367888764112445656204442013687320342007400456


No 362
>PRK10619 histidine/lysine/arginine/ornithine transporter subunit; Provisional
Probab=93.40  E-value=0.079  Score=32.10  Aligned_cols=32  Identities=31%  Similarity=0.543  Sum_probs=25.4

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             86752888788899998740489873666867448833799768
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      +||+|...+||||+++++++..            .|..|.+.+-
T Consensus        34 ~~iiG~sGsGKSTLl~~i~gl~------------~p~~G~I~~~   65 (257)
T PRK10619         34 ISIIGSSGSGKSTFLRCINFLE------------KPSEGSIVVN   65 (257)
T ss_pred             EEEECCCCCHHHHHHHHHHCCC------------CCCCCEEEEC
T ss_conf             9999899981999999996599------------9998189999


No 363
>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=93.39  E-value=0.09  Score=31.71  Aligned_cols=33  Identities=42%  Similarity=0.514  Sum_probs=25.7

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             867528887888999987404898736668674488337997685
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      +||+|.-.+||||+++.++|.-            .|.-|.+.+.+
T Consensus        30 ~~iiG~nGaGKSTLlk~i~Gl~------------~p~~G~I~~~g   62 (211)
T cd03225          30 VLIVGPNGSGKSTLLRLLNGLL------------GPTSGEVLVDG   62 (211)
T ss_pred             EEEECCCCCCHHHHHHHHHCCC------------CCCCCCEEECC
T ss_conf             9998899998999999996467------------79888778999


No 364
>PRK13542 consensus
Probab=93.36  E-value=0.081  Score=32.02  Aligned_cols=32  Identities=22%  Similarity=0.405  Sum_probs=25.8

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEEC
Q ss_conf             48675288878889999874048987366686744883379976
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAV   47 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v   47 (367)
                      .+||+|.-.+||||||+.++|.-            .|..|.+.+
T Consensus        46 i~~liGpNGaGKTTLlk~l~Gll------------~p~~G~I~~   77 (224)
T PRK13542         46 LLQVMGPNGSGKTSLLRVLSGLM------------PPAEGDLYW   77 (224)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC------------CCCCEEEEE
T ss_conf             99999999999999999995797------------888528999


No 365
>PRK13631 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=93.33  E-value=0.088  Score=31.78  Aligned_cols=34  Identities=35%  Similarity=0.418  Sum_probs=26.1

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             4867528887888999987404898736668674488337997685
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      .+||+|-..+||||+++++.|.            +.|..|.+.+.+
T Consensus        54 ~vaIIG~nGsGKSTL~~~l~Gl------------l~p~~G~I~i~~   87 (320)
T PRK13631         54 IYFIIGNSGSGKSTLVTHFNGL------------IKSKYGTIQVGD   87 (320)
T ss_pred             EEEEECCCCCCHHHHHHHHHCC------------CCCCCCEEEECC
T ss_conf             9999949998499999999758------------889983599865


No 366
>PRK11614 livF leucine/isoleucine/valine transporter ATP-binding subunit; Provisional
Probab=93.31  E-value=0.087  Score=31.82  Aligned_cols=34  Identities=26%  Similarity=0.445  Sum_probs=26.2

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             4867528887888999987404898736668674488337997685
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      -+||+|.-.+||||+++.++|..            .|..|.+.+..
T Consensus        33 i~~liG~NGaGKSTLl~~i~G~~------------~~~~G~I~~~G   66 (237)
T PRK11614         33 IVTLIGANGAGKTTLLGTLCGDP------------RATSGRIVFDG   66 (237)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC------------CCCCEEEEECC
T ss_conf             99998799975999999996799------------88962899999


No 367
>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=93.30  E-value=0.084  Score=31.92  Aligned_cols=32  Identities=41%  Similarity=0.582  Sum_probs=25.7

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEEC
Q ss_conf             48675288878889999874048987366686744883379976
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAV   47 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v   47 (367)
                      .+||+|...+||||+++.+.|..            .|..|.+.+
T Consensus        28 ~~~iiG~SGsGKSTll~~i~gL~------------~p~~G~I~~   59 (235)
T cd03261          28 ILAIIGPSGSGKSTLLRLIVGLL------------RPDSGEVLI   59 (235)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCC------------CCCCCEEEE
T ss_conf             99999999972999999997599------------989858999


No 368
>TIGR03375 type_I_sec_LssB type I secretion system ATPase, LssB family. Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion. This model is related to models TIGR01842 and TIGR01846, and to bacteriocin ABC transporters that cleave their substrates during export.
Probab=93.30  E-value=0.09  Score=31.71  Aligned_cols=13  Identities=15%  Similarity=-0.015  Sum_probs=4.9

Q ss_pred             HHCCCCEEEEECC
Q ss_conf             1034836999736
Q gi|254780226|r  315 DFEKGFIRALTIS  327 (367)
Q Consensus       315 Di~kgFi~A~v~~  327 (367)
                      +|.+|=.-|++..
T Consensus       487 ~i~~Ge~vaIvG~  499 (694)
T TIGR03375       487 TIRPGEKVAIIGR  499 (694)
T ss_pred             EECCCCEEEEEEC
T ss_conf             8879978999805


No 369
>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system.  Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond.  Phosphonates are widespread among naturally occurring compounds in all kingdoms of wildlife, but only procaryotic microorganisms are able to cleave this bond.  Certain bacteria such as E. coli can use alkylphosphonates as a phosphorus source.  ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=93.29  E-value=0.077  Score=32.16  Aligned_cols=33  Identities=39%  Similarity=0.622  Sum_probs=26.3

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             867528887888999987404898736668674488337997685
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      +||+|...+||||+++.+.+..            .|..|.+.+-+
T Consensus        30 ~~iiGpsGsGKSTLl~~i~gl~------------~p~~G~I~~~g   62 (241)
T cd03256          30 VALIGPSGAGKSTLLRCLNGLV------------EPTSGSVLIDG   62 (241)
T ss_pred             EEEECCCCCHHHHHHHHHHCCC------------CCCCEEEEECC
T ss_conf             9999999833999999997499------------99855999999


No 370
>PRK11308 dppF dipeptide transporter ATP-binding subunit; Provisional
Probab=93.26  E-value=0.7  Score=25.70  Aligned_cols=173  Identities=14%  Similarity=0.211  Sum_probs=80.4

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      .+||||-..+||||+.+++.+...            |..|.+.+..                      .|+.++      
T Consensus        43 ~lgiVGeSGsGKSTL~~~l~gl~~------------p~~G~I~~~G----------------------~dl~~~------   82 (327)
T PRK11308         43 TLAVVGESGCGKSTLARLLTMIET------------PTGGELYYQG----------------------QDLLKA------   82 (327)
T ss_pred             EEEEECCCCHHHHHHHHHHHCCCC------------CCCCEEEECC----------------------EECCCC------
T ss_conf             999999983199999999956999------------8863799899----------------------955779------


Q ss_pred             CCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Q ss_conf             46632899998730374788501234542113457767321578898888764332224577777875203204677789
Q gi|254780226|r   84 GEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLLQ  163 (367)
Q Consensus        84 G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~~  163 (367)
                          ..+-+..+|+-   |.+|  |.|     +..+.||..-+...-.|-....     ..+.+.....        ...
T Consensus        83 ----~~~~~~~~r~~---i~~V--fQ~-----p~~sLnP~~~v~~~l~e~l~~~-----~~~~~~~~~~--------~~~  135 (327)
T PRK11308         83 ----DPEAQKLLRRK---VQIV--FQN-----PYGSLNPRKKVGQILEEPLLIN-----TSLSAAERRE--------KAL  135 (327)
T ss_pred             ----CHHHHHHHHCC---EEEE--EEC-----CHHHCCHHHHHHHHHHHHHHHC-----CCCCHHHHHH--------HHH
T ss_conf             ----99999997557---7999--868-----6343380342434335778861-----4899999999--------999


Q ss_pred             HHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCC--HHHHCCCHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf             9999889988758741034431326777621023576410100100343--01110101346787788643698403321
Q gi|254780226|r  164 SIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVS--EHDCKKGNIYTEAVQRLASQQNAEMIIIS  241 (367)
Q Consensus       164 ~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~--e~~~~~~n~~~e~i~~l~~~~~~~~i~is  241 (367)
                      +++...  .|..+ .+..++.+++--+...+.=.+-+..+|-++++---  -.|........+.+.++..+.+..+++++
T Consensus       136 ~~L~~v--gL~~~-~~~ryP~eLSGGq~QRv~IArAL~~~P~lLi~DEPTsaLD~~~q~~Il~ll~~l~~~~~~t~l~IT  212 (327)
T PRK11308        136 AMMAKV--GLRPE-HYDRYPHMFSGGQRQRIAIARALMLDPDVVVADEPVSALDVSVQAQVLNLMMDLQQELGLSYVFIS  212 (327)
T ss_pred             HHHHHC--CCCHH-HHHCCCCCCCHHHHHHHHHHHHHHCCCCEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCEEEEEC
T ss_conf             999870--45665-664576447999999999999984289899984786546999999999999999970097699986


Q ss_pred             CHHHH
Q ss_conf             00246
Q gi|254780226|r  242 AAIEA  246 (367)
Q Consensus       242 a~~E~  246 (367)
                      =.+..
T Consensus       213 HDl~~  217 (327)
T PRK11308        213 HDLSV  217 (327)
T ss_pred             CCHHH
T ss_conf             98999


No 371
>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11; InterPro: IPR014155   This entry contains VirB11, a protein that 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  and is a homologue of the P-like conjugation system TrbB protein and the Flp pilus system protein TadA ..
Probab=93.25  E-value=0.065  Score=32.66  Aligned_cols=21  Identities=33%  Similarity=0.412  Sum_probs=17.2

Q ss_pred             EEEEECCCCCHHHHHHHHHCC
Q ss_conf             867528887888999987404
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRT   25 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~   25 (367)
                      |=|.|-|.||||||.||+.+.
T Consensus       161 Iii~GGTgSGKTTf~kal~~~  181 (328)
T TIGR02788       161 IIISGGTGSGKTTFLKALVKE  181 (328)
T ss_pred             EEEEECCCCHHHHHHHHHHHC
T ss_conf             999906897189999999732


No 372
>cd03218 ABC_YhbG The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids.  The genes yhbG and yhbN are located in a single operon and may function together in cell envelope during biogenesis.  YhbG is the putative ATP-binding cassette component and YhbN is the putative periplasmic-binding protein.  Depletion of each gene product leads to growth arrest, irreversible cell damage and loss of viability in E. coli.  The YhbG homolog (NtrA) is essential in Rhizobium meliloti, a symbiotic nitrogen-fixing bacterium.
Probab=93.24  E-value=0.088  Score=31.77  Aligned_cols=32  Identities=28%  Similarity=0.606  Sum_probs=25.9

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             86752888788899998740489873666867448833799768
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      +||+|--.+||||+|+.+||..            .|..|.+.+-
T Consensus        29 ~~llGpNGAGKSTll~~i~Gl~------------~p~~G~I~~~   60 (232)
T cd03218          29 VGLLGPNGAGKTTTFYMIVGLV------------KPDSGKILLD   60 (232)
T ss_pred             EEEECCCCCCHHHHHHHHHCCC------------CCCCEEEEEC
T ss_conf             9999999961999999997799------------9986299999


No 373
>TIGR02546 III_secr_ATP type III secretion apparatus H+-transporting two-sector ATPase; InterPro: IPR013380    Proteins in this entry are found in a variety of bacteria, and are predicted to be ATPases involved in type III secretion systems. One example is YscN (P40290 from SWISSPROT) from Yersinia enterocolitica, which is thought to energise the YOP (Yersinia outer protein) secretion system .; GO: 0046961 hydrogen ion transporting ATPase activity rotational mechanism, 0030254 protein secretion by the type III secretion system.
Probab=93.24  E-value=0.085  Score=31.88  Aligned_cols=27  Identities=48%  Similarity=0.637  Sum_probs=22.8

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCC
Q ss_conf             824867528887888999987404898
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASA   28 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~   28 (367)
                      +=+|||..-|.||||||...+..++.|
T Consensus       153 GQRiGIFA~aG~GKSTLL~~i~~g~~A  179 (430)
T TIGR02546       153 GQRIGIFAGAGVGKSTLLGMIARGASA  179 (430)
T ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCC
T ss_conf             530578708886166899998618988


No 374
>PRK13644 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=93.24  E-value=0.089  Score=31.76  Aligned_cols=33  Identities=42%  Similarity=0.510  Sum_probs=26.2

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             486752888788899998740489873666867448833799768
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      .+||+|...+||||+++.++|.-            .|+.|.+.+.
T Consensus        30 ~vaiiG~nGsGKSTL~~~l~Gll------------~P~~G~I~v~   62 (274)
T PRK13644         30 YIGIIGKNGSGKSTLALHLNGLL------------RPQKGKVLVS   62 (274)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCC------------CCCCCEEEEC
T ss_conf             99999999980999999997068------------5888729999


No 375
>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=93.23  E-value=0.091  Score=31.69  Aligned_cols=33  Identities=36%  Similarity=0.494  Sum_probs=25.9

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             486752888788899998740489873666867448833799768
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      -+||+|.-.+||||+++.++|.-            .|..|.+.+.
T Consensus        27 ~~~liGpNGaGKSTllk~i~Gl~------------~p~~G~i~i~   59 (213)
T cd03235          27 FLAIVGPNGAGKSTLLKAILGLL------------KPTSGSIRVF   59 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC------------CCCCCEEEEC
T ss_conf             99999999986999999997687------------8897589999


No 376
>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR).  DR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes.  Compared to other members of the ABC transporter subfamilies, the ABCG transporter family is composed of proteins that have an ATP-binding cassette domain at the N-terminus and a TM (transmembrane) domain at the C-terminus.
Probab=93.23  E-value=0.067  Score=32.60  Aligned_cols=22  Identities=45%  Similarity=0.602  Sum_probs=20.0

Q ss_pred             EEEEEECCCCCHHHHHHHHHCC
Q ss_conf             4867528887888999987404
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRT   25 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~   25 (367)
                      -+||+|.+.+||||++++++|.
T Consensus        37 i~~ilGpnGaGKSTLl~~l~Gl   58 (194)
T cd03213          37 LTAIMGPSGAGKSTLLNALAGR   58 (194)
T ss_pred             EEEEECCCCCHHHHHHHHHHCC
T ss_conf             9999989995199999998577


No 377
>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE. Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.
Probab=93.22  E-value=0.087  Score=31.81  Aligned_cols=33  Identities=27%  Similarity=0.435  Sum_probs=26.9

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             867528887888999987404898736668674488337997685
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      +||+|--.+||||+|+.++|..            .|..|.+.+.+
T Consensus        29 ~~liGpNGaGKSTL~~~i~Gl~------------~p~~G~I~~~G   61 (230)
T TIGR03410        29 TCVLGRNGVGKTTLLKTLMGLL------------PVKSGSIRLDG   61 (230)
T ss_pred             EEEECCCCCHHHHHHHHHHCCC------------CCCCEEEEECC
T ss_conf             9999999940999999997799------------99954999999


No 378
>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group. A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.
Probab=93.21  E-value=0.081  Score=32.03  Aligned_cols=33  Identities=36%  Similarity=0.557  Sum_probs=25.7

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             486752888788899998740489873666867448833799768
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      -++|+|...+|||||.+.+.+..            .|..|.+.+-
T Consensus        26 ~~~i~GpSGsGKSTLL~~i~gl~------------~p~sG~i~~~   58 (206)
T TIGR03608        26 MVAIVGESGSGKSTLLNIIGLLE------------KPDSGQVYLN   58 (206)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC------------CCCCEEEEEC
T ss_conf             99998799970999999997599------------9897599999


No 379
>PRK12739 elongation factor G; Reviewed
Probab=93.20  E-value=0.3  Score=28.21  Aligned_cols=90  Identities=19%  Similarity=0.214  Sum_probs=54.0

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEE----CCCHHHHHHHH---HC---CCCEEEEEEEEEEE
Q ss_conf             4867528887888999987404898736668674488337997----68555877764---21---86502335799985
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVA----VPDPRMHKLAE---IA---ESKDLVPTRMSFVD   73 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~----v~d~~~~~l~~---~~---~~~~~~p~~i~~iD   73 (367)
                      .|||+|---+|||||--+|-- ..-.+. .        .|.+.    +-|.+-+-...   +.   -+-.+-...|.|+|
T Consensus        12 Ni~IvaHvd~GKTTL~d~LL~-~~g~i~-~--------~g~v~~g~~~~D~~~~E~eRgITi~ss~~s~~~~~~~iNLID   81 (693)
T PRK12739         12 NIGIMAHIDAGKTTTTERILF-YTGKIH-K--------IGEVHDGAATMDWMEQEQERGITITSAATTAFWKDHRINIID   81 (693)
T ss_pred             EEEEEECCCCCHHHHHHHHHH-HCCCCC-C--------CCEECCCCCCCCCCHHHHHCCCCEEECEEEEEECCEEEEEEE
T ss_conf             999990799898999999999-769856-5--------733438975687809998759867455277845998999994


Q ss_pred             CCCCCCCCCCCCCCHHHHHHHHHCCCEEEEEECCCCC
Q ss_conf             1223543222466328999987303747885012345
Q gi|254780226|r   74 IAGLVRGASKGEGLGNQFLAHIREVDAIIHVLRCFKD  110 (367)
Q Consensus        74 vaGLv~gA~~G~GlGN~FL~~ir~aDalihVVdaf~~  110 (367)
                      .||-|--.+       ++-..+|=||.-+.||||.+.
T Consensus        82 TPGHvDF~~-------EV~~alrv~DgalvvVDaveG  111 (693)
T PRK12739         82 TPGHVDFTI-------EVERSLRVLDGAVAVFDAVSG  111 (693)
T ss_pred             CCCCCHHHH-------HHHHHHHHHCEEEEEEECCCC
T ss_conf             969740589-------999999984879999978988


No 380
>PRK13636 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=93.20  E-value=0.09  Score=31.70  Aligned_cols=89  Identities=9%  Similarity=0.110  Sum_probs=45.3

Q ss_pred             HCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCC-----CHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHH---------
Q ss_conf             1326777621023576410100100343011101-----01346787788643698403321002466552---------
Q gi|254780226|r  185 SLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKK-----GNIYTEAVQRLASQQNAEMIIISAAIEAEISQ---------  250 (367)
Q Consensus       185 ~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~-----~n~~~e~i~~l~~~~~~~~i~isa~~E~ei~~---------  250 (367)
                      .++--+...+.=..-+..+|-++++-   .+.+.     .....+.+.++..+.+..++.++-.++....+         
T Consensus       141 ~LSGGqkqRvaIA~aLa~~P~iLlLD---EPTagLDp~~~~~i~~ll~~l~~e~g~TiilvtHd~~~v~~~aDrvivl~~  217 (285)
T PRK13636        141 CLSFGQKKRVAIAGVLVMEPKVLVLD---EPTAGLDPMGVSEIMKLLVEMQKELGLTIIIATHDIDIVPLYCDNVFVMKE  217 (285)
T ss_pred             CCCHHHHHHHHHHHHHHCCCCEEEEE---CCCCCCCHHHHHHHHHHHHHHHHHCCCEEEEECCCHHHHHHHCCEEEEEEC
T ss_conf             19999999999999997499899997---875559999999999999999984498999994889999996999999989


Q ss_pred             ------CCCHH---HHHHHHHCCCCCCCHHHHHHH
Q ss_conf             ------88426---778877538874228999999
Q gi|254780226|r  251 ------LPEEE---RALFMEELDISISGLELLIRS  276 (367)
Q Consensus       251 ------l~~ee---~~e~l~~~~l~~tgl~~li~~  276 (367)
                            -+.+|   +.+.|+..++..+-+-++...
T Consensus       218 G~iv~~G~p~evf~~~~~l~~~~l~~P~~~~l~~~  252 (285)
T PRK13636        218 GRVILQGNPKEVFAEKEMLRKVNLRLPRIGHLMEI  252 (285)
T ss_pred             CEEEEECCHHHHHCCHHHHHHCCCCCCCHHHHHHH
T ss_conf             98999869999966999999779999969999999


No 381
>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]
Probab=93.20  E-value=0.076  Score=32.21  Aligned_cols=23  Identities=39%  Similarity=0.511  Sum_probs=20.4

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCC
Q ss_conf             86752888788899998740489
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTAS   27 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~   27 (367)
                      ++|+|...||||||+|.+.+...
T Consensus        34 vaI~GpSGSGKSTLLniig~ld~   56 (226)
T COG1136          34 VAIVGPSGSGKSTLLNLLGGLDK   56 (226)
T ss_pred             EEEECCCCCCHHHHHHHHHCCCC
T ss_conf             99989999989999999964667


No 382
>PRK13648 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=93.20  E-value=0.09  Score=31.72  Aligned_cols=34  Identities=26%  Similarity=0.323  Sum_probs=26.3

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             4867528887888999987404898736668674488337997685
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      .+||+|...+||||+++.++|.            ..|..|.+.+..
T Consensus        37 ~vaiiG~sGsGKSTLl~ll~Gl------------~~p~~G~I~~~g   70 (269)
T PRK13648         37 WTSIVGHNGSGKSTIAKLMIGI------------EKVKSGEIFYNN   70 (269)
T ss_pred             EEEEECCCCCCHHHHHHHHHCC------------CCCCCEEEEECC
T ss_conf             9999999999799999999649------------799850999999


No 383
>TIGR02204 MsbA_rel ABC transporter, permease/ATP-binding protein; InterPro: IPR011918    This protein is related to a Proteobacterial ATP transporter that exports lipid A and to eukaryotic P-glycoproteins ..
Probab=93.19  E-value=0.067  Score=32.57  Aligned_cols=32  Identities=38%  Similarity=0.678  Sum_probs=27.0

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEEC
Q ss_conf             48675288878889999874048987366686744883379976
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAV   47 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v   47 (367)
                      ++.|||-..+||||+|+.|=.-            =||..|.+.+
T Consensus       368 tvAlVGPSGAGKSTlf~LLLRF------------YDP~~G~ilL  399 (576)
T TIGR02204       368 TVALVGPSGAGKSTLFQLLLRF------------YDPQSGRILL  399 (576)
T ss_pred             EEEEECCCCCHHHHHHHHHHHC------------CCCCCCEEEE
T ss_conf             5887668876279999999860------------4888765774


No 384
>PRK13538 cytochrome c biogenesis protein CcmA; Provisional
Probab=93.16  E-value=0.094  Score=31.58  Aligned_cols=33  Identities=33%  Similarity=0.466  Sum_probs=25.7

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             486752888788899998740489873666867448833799768
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      -+||+|.-.+|||||++.++|..            .|..|.+.+.
T Consensus        29 ~~~l~G~NGaGKSTLl~~l~Gl~------------~p~~G~i~~~   61 (204)
T PRK13538         29 LVQIEGPNGAGKTSLLRILAGLA------------RPDAGEVLWQ   61 (204)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC------------CCCCCEEEEC
T ss_conf             99999999985999999997688------------8887379999


No 385
>PRK13639 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=93.16  E-value=0.11  Score=31.00  Aligned_cols=33  Identities=36%  Similarity=0.541  Sum_probs=26.5

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             486752888788899998740489873666867448833799768
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      .+||+|--.+||||+++.+.|.-            .|..|.+.+.
T Consensus        30 ~vaiiG~nGsGKSTLl~~l~Gll------------~P~~G~I~v~   62 (275)
T PRK13639         30 MIAILGPNGAGKSTLFLHFNGIL------------KPSSGSVLIK   62 (275)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCC------------CCCCEEEEEC
T ss_conf             99999999964999999997398------------9996399999


No 386
>PRK13547 hmuV hemin importer ATP-binding subunit; Provisional
Probab=93.16  E-value=0.067  Score=32.60  Aligned_cols=23  Identities=30%  Similarity=0.459  Sum_probs=20.3

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCC
Q ss_conf             48675288878889999874048
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTA   26 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~   26 (367)
                      -+||+|.-.+||||++++++|.-
T Consensus        29 ~~aliG~nGaGKSTLl~~i~G~l   51 (273)
T PRK13547         29 VTALLGRNGAGKSTLLKVLAGEL   51 (273)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCC
T ss_conf             99999999976999999995678


No 387
>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional
Probab=93.14  E-value=0.092  Score=31.66  Aligned_cols=34  Identities=35%  Similarity=0.509  Sum_probs=26.6

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             4867528887888999987404898736668674488337997685
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      -+||+|...+||||+++.++|..            .|..|.+.+-.
T Consensus        37 ~v~iiG~sGsGKSTLl~~i~Gl~------------~p~~G~I~~~g   70 (233)
T PRK11629         37 MMAIVGSSGSGKSTLLHLLGGLD------------TPTSGDVIFNG   70 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC------------CCCCEEEEECC
T ss_conf             99999999940999999996699------------99863999999


No 388
>PRK07560 elongation factor EF-2; Reviewed
Probab=93.13  E-value=0.47  Score=26.89  Aligned_cols=92  Identities=21%  Similarity=0.242  Sum_probs=53.0

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHH---H-----HH--HHCCCCEEEEEEEEEEE
Q ss_conf             48675288878889999874048987366686744883379976855587---7-----76--42186502335799985
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMH---K-----LA--EIAESKDLVPTRMSFVD   73 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~---~-----l~--~~~~~~~~~p~~i~~iD   73 (367)
                      .|||+|--.+|||||--++--.+. .|..       ..-|-..+-|-...   +     .+  .++..++-....|.|+|
T Consensus        22 NI~IiaHvdaGKTTLtE~lL~~sg-~i~~-------~~~~~~t~~D~~~~E~eRgITI~sa~~sl~~~~~~~~~~INlID   93 (730)
T PRK07560         22 NIGIVAHIDHGKTTLSDNLLAGAG-MISE-------ELAGKQLALDYDEEEQARGITIKAANVSMVHEYEGKEYLINLID   93 (730)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHCC-CCCC-------CCCCCCEECCCHHHHHHCCCCEEECCEEEEEEECCCCEEEEEEC
T ss_conf             899993799898999999999649-9865-------34798641788599997298575211028987569837899981


Q ss_pred             CCCCCCCCCCCCCCHHHHHHHHHCCCEEEEEECCCCC
Q ss_conf             1223543222466328999987303747885012345
Q gi|254780226|r   74 IAGLVRGASKGEGLGNQFLAHIREVDAIIHVLRCFKD  110 (367)
Q Consensus        74 vaGLv~gA~~G~GlGN~FL~~ir~aDalihVVdaf~~  110 (367)
                      .||-+--.       .+.-..+|=+|.-+.||||...
T Consensus        94 TPGh~DF~-------~Ev~~aLrv~DgAvvVvdav~G  123 (730)
T PRK07560         94 TPGHVDFG-------GDVTRAMRAVDGAIVVVDAVEG  123 (730)
T ss_pred             CCCCCHHH-------HHHHHHHHHHCEEEEEEECCCC
T ss_conf             96973059-------9999999885878999978988


No 389
>PRK11000 maltose/maltodextrin transporter ATP-binding protein; Provisional
Probab=93.13  E-value=0.099  Score=31.45  Aligned_cols=34  Identities=24%  Similarity=0.389  Sum_probs=26.5

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             4867528887888999987404898736668674488337997685
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      -++|+|-..+||||+++.++|..            .|..|.+.+-+
T Consensus        31 ~~~llGpsG~GKSTllr~i~Gl~------------~p~~G~I~i~g   64 (369)
T PRK11000         31 FVVFVGPSGCGKSTLLRMIAGLE------------DITSGDLFIGE   64 (369)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCC------------CCCCEEEEECC
T ss_conf             99999999736999999997799------------99954999999


No 390
>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis.  The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes.  CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space.  In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.
Probab=93.12  E-value=0.093  Score=31.62  Aligned_cols=35  Identities=34%  Similarity=0.549  Sum_probs=26.9

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             24867528887888999987404898736668674488337997685
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      -+++|+|...+||||+++.+.|.-            .|..|.+.+..
T Consensus        29 e~~aivG~sGsGKSTLl~~l~G~~------------~p~~G~i~i~g   63 (178)
T cd03247          29 EKIALLGRSGSGKSTLLQLLTGDL------------KPQQGEITLDG   63 (178)
T ss_pred             CEEEEECCCCCHHHHHHHHHHHCC------------CCCCCEEEECC
T ss_conf             999999999875999999998617------------66788699999


No 391
>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity.  In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs.  Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family.  ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules.  The nucleotide binding domain shows the highest similarity between all members of the family.  ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=93.11  E-value=0.091  Score=31.69  Aligned_cols=33  Identities=30%  Similarity=0.492  Sum_probs=26.3

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             867528887888999987404898736668674488337997685
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      +||+|.-.+||||+|+.++|.-            .|..|.+.+..
T Consensus        29 ~gllG~NGaGKTTll~~i~Gl~------------~p~~G~i~i~G   61 (210)
T cd03269          29 FGLLGPNGAGKTTTIRMILGII------------LPDSGEVLFDG   61 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHCCC------------CCCCCEEEECC
T ss_conf             9999899984999999996002------------66899899999


No 392
>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]
Probab=93.10  E-value=0.075  Score=32.24  Aligned_cols=23  Identities=52%  Similarity=0.790  Sum_probs=20.4

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHC
Q ss_conf             82486752888788899998740
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTR   24 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~   24 (367)
                      +..|||.|-|.+|||||..+|..
T Consensus        51 a~viGITG~PGaGKSTli~~L~~   73 (323)
T COG1703          51 AHVIGITGVPGAGKSTLIEALGR   73 (323)
T ss_pred             CCEEEECCCCCCCHHHHHHHHHH
T ss_conf             83787317998866889999999


No 393
>PRK11831 putative ABC transporter ATP-binding protein YrbF; Provisional
Probab=93.10  E-value=0.094  Score=31.59  Aligned_cols=31  Identities=29%  Similarity=0.595  Sum_probs=24.9

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEEC
Q ss_conf             8675288878889999874048987366686744883379976
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAV   47 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v   47 (367)
                      +||+|-..+||||+++.++|.-            .|..|.+.+
T Consensus        37 ~~iiGpnGsGKSTLlk~i~Gl~------------~p~~G~I~~   67 (269)
T PRK11831         37 TAIMGPSGIGKTTLLRLIGGQI------------APDHGEILF   67 (269)
T ss_pred             EEEECCCCCHHHHHHHHHHCCC------------CCCCCEEEE
T ss_conf             9999399975999999996798------------889866999


No 394
>PTZ00243 ABC transporter; Provisional
Probab=93.09  E-value=0.099  Score=31.44  Aligned_cols=20  Identities=35%  Similarity=0.531  Sum_probs=18.8

Q ss_pred             EEEEECCCCCHHHHHHHHHC
Q ss_conf             86752888788899998740
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTR   24 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~   24 (367)
                      ++|||.-.+|||||.+|+-|
T Consensus       689 ~~IvG~vGSGKSSLL~aiLG  708 (1560)
T PTZ00243        689 TVVLGATGSGKSTLLQSLLS  708 (1560)
T ss_pred             EEEECCCCCCHHHHHHHHHC
T ss_conf             99989999879999999968


No 395
>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos).  The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis.  Pentoses include xylose, arabinose, and ribose.  Important hexoses include glucose, galactose, and fructose.  In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains.  However, it is assumed that two copies of the ABC domains are present in the assembled transporter.
Probab=93.08  E-value=0.1  Score=31.33  Aligned_cols=32  Identities=38%  Similarity=0.586  Sum_probs=25.1

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             86752888788899998740489873666867448833799768
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      +||+|.-.+||||+++.++|...            |.-|.+.+.
T Consensus        29 ~~lvG~nGaGKSTl~~~i~Gl~~------------p~~G~i~i~   60 (163)
T cd03216          29 HALLGENGAGKSTLMKILSGLYK------------PDSGEILVD   60 (163)
T ss_pred             EEEECCCCCCHHHHHHHHHCCCC------------CCCCEEEEC
T ss_conf             99998899899999999957768------------985789999


No 396
>PRK13632 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=93.08  E-value=0.094  Score=31.60  Aligned_cols=34  Identities=35%  Similarity=0.490  Sum_probs=26.7

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             4867528887888999987404898736668674488337997685
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      .+||+|...+|||||++.++|.-            .|..|.+.+..
T Consensus        38 ~vaivG~nGsGKSTLlk~l~Gll------------~p~~G~I~v~G   71 (273)
T PRK13632         38 YVAILGHNGSGKSTISKILTGLL------------KPQSGEIKIFG   71 (273)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCC------------CCCCCEEEECC
T ss_conf             99999999986999999997387------------78887599999


No 397
>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters. PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes.  This PDR subfamily represents domain I of its (ABC-IM)2 organization.  ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules.  The nucleotide binding domain shows the highest similarity between all members of the family.  ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=93.07  E-value=0.076  Score=32.20  Aligned_cols=21  Identities=29%  Similarity=0.534  Sum_probs=19.4

Q ss_pred             EEEEEECCCCCHHHHHHHHHC
Q ss_conf             486752888788899998740
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTR   24 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~   24 (367)
                      .+||+|...+|||||++.+++
T Consensus        35 ~~~llGpnGaGKSTLl~~l~g   55 (192)
T cd03232          35 LTALMGESGAGKTTLLDVLAG   55 (192)
T ss_pred             EEEEECCCCCCHHHHHHHHHC
T ss_conf             999999999988999999837


No 398
>cd03267 ABC_NatA_like Similar in sequence to NatA, this is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled to proton or K+ uptake.  NatB possess six putative membrane spanning regions at its C-terminus.  In B. subtilis, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane.  The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system.  Hence, the functional NatAB is presumably assembled with two copies of the single ATP-binding protein and the single intergral membrane protein.
Probab=93.04  E-value=0.091  Score=31.70  Aligned_cols=31  Identities=42%  Similarity=0.650  Sum_probs=25.3

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEEC
Q ss_conf             8675288878889999874048987366686744883379976
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAV   47 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v   47 (367)
                      +||+|.-.+||||+++.++|.-            .|..|.+.+
T Consensus        50 ~gLlGpNGaGKSTllk~l~Gl~------------~p~~G~I~v   80 (236)
T cd03267          50 VGFIGPNGAGKTTTLKILSGLL------------QPTSGEVRV   80 (236)
T ss_pred             EEEECCCCCHHHHHHHHHHCCC------------CCCCEEEEE
T ss_conf             9999999830999999996494------------887159999


No 399
>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin.  In addition to DrrA, the complex includes an integral membrane protein called DrrB.  DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called  P-glycoprotein.  ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.  The nucleotide binding domain shows the highest similarity between all members of the family.  ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=93.01  E-value=0.1  Score=31.41  Aligned_cols=32  Identities=34%  Similarity=0.580  Sum_probs=25.5

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             86752888788899998740489873666867448833799768
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      +||+|.-.+||||+|+.++|.-            .|..|.+.+.
T Consensus        29 ~gllGpNGAGKSTll~~i~Gl~------------~p~~G~i~i~   60 (220)
T cd03265          29 FGLLGPNGAGKTTTIKMLTTLL------------KPTSGRATVA   60 (220)
T ss_pred             EEEECCCCCHHHHHHHHHHCCC------------CCCCCEEEEC
T ss_conf             9999999871999999997697------------8896289999


No 400
>PRK13539 cytochrome c biogenesis protein CcmA; Provisional
Probab=93.01  E-value=0.099  Score=31.45  Aligned_cols=34  Identities=24%  Similarity=0.384  Sum_probs=26.3

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             4867528887888999987404898736668674488337997685
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      -+||+|.-.+|||||++++.|...            |..|.+.+.+
T Consensus        30 i~~l~G~NGaGKTTLlk~i~Gl~~------------p~~G~I~~~g   63 (206)
T PRK13539         30 ALVLTGPNGSGKTTLLRLLAGLLP------------PAAGTIKLDG   63 (206)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCC------------CCCEEEEECC
T ss_conf             999989999989999999958878------------8851899999


No 401
>PRK13541 cytochrome c biogenesis protein CcmA; Provisional
Probab=93.01  E-value=0.097  Score=31.50  Aligned_cols=34  Identities=26%  Similarity=0.410  Sum_probs=26.9

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             4867528887888999987404898736668674488337997685
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      -+||+|.-.+|||||++.++|..            .|..|.+.+.+
T Consensus        28 i~~i~G~NGsGKSTLlk~i~Gl~------------~p~~G~I~~~~   61 (195)
T PRK13541         28 ITYIKGANGCGKSSLLRMIAGIM------------QPSSGNIYYKN   61 (195)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC------------CCCCEEEEECC
T ss_conf             99999999981999999996798------------89840899999


No 402
>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]
Probab=93.01  E-value=0.076  Score=32.20  Aligned_cols=26  Identities=31%  Similarity=0.445  Sum_probs=22.4

Q ss_pred             CC--CEEEEEECCCCCHHHHHHHHHCCC
Q ss_conf             98--248675288878889999874048
Q gi|254780226|r    1 MG--FKCGIIGLPNVGKSTLFNALTRTA   26 (367)
Q Consensus         1 m~--~kiGlvG~pn~GKST~f~alT~~~   26 (367)
                      |+  +.+-++|-|.|||||..+-+-+..
T Consensus         1 mk~~kvvvitGVpGvGKTTVl~~~~~~l   28 (189)
T COG2019           1 MKGRKVVVITGVPGVGKTTVLKIALKEL   28 (189)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             9975599997579887266999999877


No 403
>PRK13645 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=93.00  E-value=0.096  Score=31.52  Aligned_cols=89  Identities=9%  Similarity=0.147  Sum_probs=47.0

Q ss_pred             HCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCC-----CHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHC--------
Q ss_conf             1326777621023576410100100343011101-----013467877886436984033210024665528--------
Q gi|254780226|r  185 SLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKK-----GNIYTEAVQRLASQQNAEMIIISAAIEAEISQL--------  251 (367)
Q Consensus       185 ~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~-----~n~~~e~i~~l~~~~~~~~i~isa~~E~ei~~l--------  251 (367)
                      +++--+...+.=..-+...|-++++   |.+.+.     .....+.+.++..+.+..++.++-.++......        
T Consensus       150 ~LSGGqkqRVaiA~aLa~~P~iLil---DEPTagLDp~~~~~i~~ll~~L~~~~g~Tvi~vtHdm~~v~~~aDrviVm~~  226 (289)
T PRK13645        150 ELSGGQKRRVALAGIIAMDGNTLVL---DEPTGGLDPKGEEDFINLFERLNKEYKKRIIMVTHNMDQVLRIADEVIVMHE  226 (289)
T ss_pred             CCCHHHHHHHHHHHHHHCCCCEEEE---ECCCCCCCHHHHHHHHHHHHHHHHHCCCEEEEECCCHHHHHHHCCEEEEEEC
T ss_conf             0999999999999999639999999---5887648989999999999999995699999991599999997999999989


Q ss_pred             -------CCHH---HHHHHHHCCCCCCCHHHHHHH
Q ss_conf             -------8426---778877538874228999999
Q gi|254780226|r  252 -------PEEE---RALFMEELDISISGLELLIRS  276 (367)
Q Consensus       252 -------~~ee---~~e~l~~~~l~~tgl~~li~~  276 (367)
                             +.+|   +.++|+..++..+.+-++.+.
T Consensus       227 G~iv~~G~p~evf~~~~~l~~~~l~~P~~~~l~~~  261 (289)
T PRK13645        227 GKVISIGSPFEIFSNQELLTKIEIDPPKLYQLMYK  261 (289)
T ss_pred             CEEEEECCHHHHHCCHHHHHHCCCCCCHHHHHHHH
T ss_conf             98999878899867999999779999859999999


No 404
>pfam03266 DUF265 Protein of unknown function, DUF265.
Probab=92.99  E-value=0.075  Score=32.24  Aligned_cols=21  Identities=38%  Similarity=0.563  Sum_probs=18.5

Q ss_pred             EEEEEECCCCCHHHHHHHHHC
Q ss_conf             486752888788899998740
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTR   24 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~   24 (367)
                      ||.|.|.|.+||||+...+..
T Consensus         1 ki~ITG~pGvGKTTli~kv~~   21 (168)
T pfam03266         1 RIFITGPPGVGKTTLVKKVIE   21 (168)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
T ss_conf             989978999889999999999


No 405
>PRK11231 fecE iron-dicitrate transporter ATP-binding subunit; Provisional
Probab=92.97  E-value=0.1  Score=31.42  Aligned_cols=33  Identities=39%  Similarity=0.608  Sum_probs=25.6

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             867528887888999987404898736668674488337997685
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      +||+|.-.+||||++++++|.-            .|..|.+.+-.
T Consensus        31 ~~liGpNGaGKSTLlk~i~Gl~------------~p~sG~I~i~g   63 (255)
T PRK11231         31 TALIGPNGCGKSTLLKCFARLL------------TPQSGTVFLGD   63 (255)
T ss_pred             EEEECCCCCHHHHHHHHHHCCC------------CCCCCEEEECC
T ss_conf             9999999981999999997598------------88864899999


No 406
>PRK13545 tagH teichoic acids export protein ATP-binding subunit; Provisional
Probab=92.97  E-value=0.15  Score=30.30  Aligned_cols=23  Identities=43%  Similarity=0.609  Sum_probs=20.7

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCC
Q ss_conf             48675288878889999874048
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTA   26 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~   26 (367)
                      .+||+|.-.+||||+.+.++|.-
T Consensus        52 ~vGIIG~NGAGKSTLLKiIaGI~   74 (549)
T PRK13545         52 IVGIVGLNGSGKSTLSNLIAGVT   74 (549)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC
T ss_conf             99998899998999999996898


No 407
>PRK10253 iron-enterobactin transporter ATP-binding protein; Provisional
Probab=92.97  E-value=0.084  Score=31.93  Aligned_cols=34  Identities=38%  Similarity=0.521  Sum_probs=26.9

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             4867528887888999987404898736668674488337997685
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      -+||+|.-.+|||||+++++|..            .|..|.+.+..
T Consensus        35 ~~~iiGpNGaGKSTLlk~i~Gll------------~p~~G~I~l~g   68 (265)
T PRK10253         35 FTAIIGPNGCGKSTLLRTLSRLM------------TPAHGHVWLDG   68 (265)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCC------------CCCCEEEEECC
T ss_conf             99999998839999999997498------------88852999999


No 408
>PRK09984 phosphonate/organophosphate ester transporter subunit; Provisional
Probab=92.90  E-value=0.083  Score=31.94  Aligned_cols=23  Identities=30%  Similarity=0.453  Sum_probs=20.5

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCC
Q ss_conf             48675288878889999874048
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTA   26 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~   26 (367)
                      -+||+|.-.+||||++++++|.-
T Consensus        32 ~~~iiGpNGaGKSTLlk~i~Gll   54 (262)
T PRK09984         32 MVALLGPSGSGKSTLLRHLSGLI   54 (262)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCC
T ss_conf             99999899960999999997567


No 409
>PRK09580 sufC cysteine desulfurase ATPase component; Reviewed
Probab=92.88  E-value=0.085  Score=31.88  Aligned_cols=36  Identities=33%  Similarity=0.455  Sum_probs=26.6

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             4867528887888999987404898736668674488337997685
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      -+||+|...+|||||++.++|.     .+|     .|.-|.+.+..
T Consensus        29 i~~iiG~nGaGKSTLl~~i~G~-----~~~-----~~~~G~I~~~G   64 (248)
T PRK09580         29 VHAIMGPNGSGKSTLSATLAGR-----EDY-----EVTGGTVTFKG   64 (248)
T ss_pred             EEEEECCCCCCHHHHHHHHHCC-----CCC-----CCCCCEEEECC
T ss_conf             9999999999999999998377-----556-----87523599999


No 410
>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=92.86  E-value=0.096  Score=31.53  Aligned_cols=34  Identities=29%  Similarity=0.574  Sum_probs=27.1

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             4867528887888999987404898736668674488337997685
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      -+||+|.-.+||||+++.++|.-            .|..|.+.+-.
T Consensus        27 i~gllGpNGAGKSTll~~i~Gl~------------~p~sG~i~i~g   60 (211)
T cd03264          27 MYGLLGPNGAGKTTLMRILATLT------------PPSSGTIRIDG   60 (211)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCC------------CCCCEEEEECC
T ss_conf             59999999823999999997596------------68962999999


No 411
>PRK10938 putative molybdenum transport ATP-binding protein ModF; Provisional
Probab=92.86  E-value=0.11  Score=31.08  Aligned_cols=22  Identities=32%  Similarity=0.413  Sum_probs=20.3

Q ss_pred             EEEEEECCCCCHHHHHHHHHCC
Q ss_conf             4867528887888999987404
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRT   25 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~   25 (367)
                      .+||||.-.+|||||+++++|.
T Consensus        31 ~~~LvG~NGaGKSTL~k~l~G~   52 (490)
T PRK10938         31 SWAFVGSNGSGKSALARALAGE   52 (490)
T ss_pred             EEEEECCCCCHHHHHHHHHHCC
T ss_conf             9999979997799999999569


No 412
>cd03116 MobB Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa, mob, mod, moe and mog. The mob locus contains mobA and mobB genes. MobB catalyzes the attachment of the guanine dinucleotide to molybdopterin.
Probab=92.85  E-value=0.094  Score=31.58  Aligned_cols=20  Identities=35%  Similarity=0.647  Sum_probs=18.4

Q ss_pred             EEEEECCCCCHHHHHHHHHC
Q ss_conf             86752888788899998740
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTR   24 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~   24 (367)
                      +++||..|+|||||-..+..
T Consensus         4 i~ivG~snSGKTTLi~kli~   23 (159)
T cd03116           4 IGFVGYSGSGKTTLLEKLIP   23 (159)
T ss_pred             EEEEECCCCCHHHHHHHHHH
T ss_conf             99996799999999999999


No 413
>PTZ00265 multidrug resistance protein (mdr1); Provisional
Probab=92.85  E-value=0.17  Score=29.81  Aligned_cols=24  Identities=25%  Similarity=0.394  Sum_probs=20.6

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCC
Q ss_conf             248675288878889999874048
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTA   26 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~   26 (367)
                      -+++|||...+||||+.+.|-+.=
T Consensus       412 ~t~AlVG~SGsGKSTii~LL~RfY  435 (1467)
T PTZ00265        412 KTYAFVGESGCGKSTILKLIERLY  435 (1467)
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCC
T ss_conf             779986688875667999996326


No 414
>PRK11264 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional
Probab=92.83  E-value=0.11  Score=31.08  Aligned_cols=23  Identities=30%  Similarity=0.455  Sum_probs=20.4

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCC
Q ss_conf             48675288878889999874048
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTA   26 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~   26 (367)
                      -+||+|...+||||+++++++..
T Consensus        29 ~~aliG~sGsGKSTLl~~l~gl~   51 (248)
T PRK11264         29 VVAIIGPSGSGKTTLLRCINLLE   51 (248)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC
T ss_conf             99999999980999999997589


No 415
>PRK10908 cell division protein FtsE; Provisional
Probab=92.82  E-value=0.098  Score=31.45  Aligned_cols=33  Identities=24%  Similarity=0.408  Sum_probs=26.0

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             486752888788899998740489873666867448833799768
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      -+||+|...+||||+++.++|..            .|..|.+.+-
T Consensus        30 ~~~liG~nGsGKSTLl~~i~Gl~------------~p~~G~i~~~   62 (222)
T PRK10908         30 MAFLTGHSGAGKSTLLKLICGIE------------RPSAGKIWFS   62 (222)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCC------------CCCCEEEEEC
T ss_conf             99999999807999999996599------------9986299999


No 416
>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.  The nucleotide-binding domain shows the highest similarity between all members of the family.  ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=92.82  E-value=0.11  Score=31.14  Aligned_cols=34  Identities=32%  Similarity=0.553  Sum_probs=26.3

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             4867528887888999987404898736668674488337997685
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      -+||+|...+||||+++++++..            .|..|.+.+..
T Consensus        27 ~~~i~G~nGaGKSTLl~~l~gl~------------~~~~G~i~~~g   60 (157)
T cd00267          27 IVALVGPNGSGKSTLLRAIAGLL------------KPTSGEILIDG   60 (157)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC------------CCCCCEEEECC
T ss_conf             99998788999899999995884------------79962899999


No 417
>PRK13651 cobalt transporter ATP-binding subunit; Provisional
Probab=92.81  E-value=0.12  Score=30.95  Aligned_cols=32  Identities=28%  Similarity=0.443  Sum_probs=25.2

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEEC
Q ss_conf             48675288878889999874048987366686744883379976
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAV   47 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v   47 (367)
                      -+||+|...+|||||++.++|.-            .|..|.+.+
T Consensus        35 ~v~IiG~nGsGKSTL~k~l~Gll------------~P~~G~V~~   66 (304)
T PRK13651         35 FIAIIGQTGSGKTTFIEHLNALL------------LPDTGTIEW   66 (304)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC------------CCCCCEEEE
T ss_conf             99998799985999999996699------------988716999


No 418
>PRK13652 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=92.81  E-value=0.099  Score=31.44  Aligned_cols=34  Identities=35%  Similarity=0.600  Sum_probs=26.9

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             4867528887888999987404898736668674488337997685
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      .+||+|.-.+||||+++.++|.-            .|..|.+.+..
T Consensus        32 ~~aliG~NGaGKSTLl~~i~Gll------------~p~~G~I~i~G   65 (277)
T PRK13652         32 RIAVIGPNGAGKSTLFKHFNGIL------------KPTSGSVLIRG   65 (277)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCC------------CCCCEEEEECC
T ss_conf             99999999947999999996699------------99846999999


No 419
>PRK13635 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=92.81  E-value=0.12  Score=30.94  Aligned_cols=33  Identities=33%  Similarity=0.434  Sum_probs=26.0

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             486752888788899998740489873666867448833799768
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      .+||||-..+||||++++++|.-            .|..|.+.+-
T Consensus        35 ~vaivG~nGsGKSTL~k~l~Gl~------------~p~~G~I~i~   67 (279)
T PRK13635         35 WVAIVGHNGSGKSTLAKLLNGLL------------LPEAGTITVG   67 (279)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCC------------CCCCCEEEEC
T ss_conf             99999999965999999997288------------8889649999


No 420
>PRK03695 vitamin B12-transporter ATPase; Provisional
Probab=92.80  E-value=0.083  Score=31.95  Aligned_cols=22  Identities=27%  Similarity=0.388  Sum_probs=19.8

Q ss_pred             EEEEEECCCCCHHHHHHHHHCC
Q ss_conf             4867528887888999987404
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRT   25 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~   25 (367)
                      -+||+|.-.+||||++++++|.
T Consensus        25 ~v~iiGpNGaGKSTLlk~i~Gl   46 (245)
T PRK03695         25 ILHLVGPNGAGKSTLLARMAGL   46 (245)
T ss_pred             EEEEECCCCCHHHHHHHHHHCC
T ss_conf             9999978994199999998466


No 421
>cd03300 ABC_PotA_N PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D.  PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required for homodimerization with PotA and heterdimerization with PotB.  ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.  The nucleotide binding domain shows the highest similarity between all members of the family.  ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=92.79  E-value=0.11  Score=31.14  Aligned_cols=33  Identities=27%  Similarity=0.520  Sum_probs=26.2

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             867528887888999987404898736668674488337997685
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      ++|+|...+||||+++.+.|..            .|.-|.+.+-+
T Consensus        29 ~~iiGpSGsGKSTllr~i~Gl~------------~p~~G~I~~~g   61 (232)
T cd03300          29 FTLLGPSGCGKTTLLRLIAGFE------------TPTSGEILLDG   61 (232)
T ss_pred             EEEECCCCCHHHHHHHHHHCCC------------CCCCEEEEECC
T ss_conf             9999999983999999997799------------99853999999


No 422
>PRK09493 glnQ glutamine ABC transporter ATP-binding protein; Reviewed
Probab=92.78  E-value=0.11  Score=31.19  Aligned_cols=23  Identities=35%  Similarity=0.481  Sum_probs=20.5

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCC
Q ss_conf             48675288878889999874048
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTA   26 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~   26 (367)
                      -+||+|...+||||++++++|..
T Consensus        29 ~~~liG~nGsGKSTll~~i~Gl~   51 (240)
T PRK09493         29 VVVIIGPSGSGKSTLLRCINKLE   51 (240)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCC
T ss_conf             99999999980999999996389


No 423
>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea.  Only very few species lack representatives of the siderophore family transporters.  The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake.  The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA.  The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme.  A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.
Probab=92.74  E-value=0.12  Score=30.92  Aligned_cols=34  Identities=38%  Similarity=0.622  Sum_probs=26.8

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             4867528887888999987404898736668674488337997685
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      .+||+|.-.+|||||+++++|..            +|..|.+.+.+
T Consensus        27 ~~~liG~nGsGKTTLl~~i~G~~------------~~~~G~I~~~g   60 (180)
T cd03214          27 IVGILGPNGAGKSTLLKTLAGLL------------KPSSGEILLDG   60 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC------------CCCCCEEEECC
T ss_conf             99999899988999999995798------------99872899999


No 424
>KOG1489 consensus
Probab=92.74  E-value=0.079  Score=32.09  Aligned_cols=23  Identities=13%  Similarity=0.171  Sum_probs=14.8

Q ss_pred             HHHHHHHHHHCCCHHEECCCHHH
Q ss_conf             21023576410100100343011
Q gi|254780226|r  193 IFKSLNLLTAKPILYICNVSEHD  215 (367)
Q Consensus       193 ~l~~~~llt~KP~iivaNk~e~~  215 (367)
                      .+.+|.|-|.+|-+=..|.+|..
T Consensus       222 kVa~YaFTTL~P~iG~v~yddf~  244 (366)
T KOG1489         222 KVAHYAFTTLRPHIGTVNYDDFS  244 (366)
T ss_pred             CCCCCCEEEECCCCCEEECCCCC
T ss_conf             54554203444641125135451


No 425
>PRK11124 artP arginine transporter ATP-binding subunit; Provisional
Probab=92.71  E-value=0.12  Score=30.94  Aligned_cols=33  Identities=27%  Similarity=0.471  Sum_probs=25.7

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             486752888788899998740489873666867448833799768
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      .+||+|...+||||+++.+++..            .|..|.+.+-
T Consensus        30 ~~~iiG~nGaGKSTLl~~l~gl~------------~p~~G~i~i~   62 (242)
T PRK11124         30 TLVLLGPSGAGKSSLLRVLNLLE------------MPRSGTLNIA   62 (242)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC------------CCCCEEEEEC
T ss_conf             99999999971999999996588------------8886089999


No 426
>TIGR00991 3a0901s02IAP34 GTP-binding protein; InterPro: IPR005688    Two integral outer envelope GTPases, Toc34 and Toc86, are proposed to regulate the recognition and translocation of nuclear-encoded preproteins during the early stages of protein import into chloroplasts.. The cytosolic region of Toc34 reveals 34% alpha-helical and 260eta-strand structure and is stabilized by intramolecular electrostatic interaction. Toc34 binds both chloroplast preproteins and isolated transit peptides in a guanosine triphosphate- (GTP-) dependent mechanism . ; GO: 0015450 P-P-bond-hydrolysis-driven protein transmembrane transporter activity, 0006886 intracellular protein transport, 0009707 chloroplast outer membrane.
Probab=92.71  E-value=0.19  Score=29.51  Aligned_cols=87  Identities=21%  Similarity=0.353  Sum_probs=52.9

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
                      ++.|=+.|+-.+|||+..|.+.|-..+.+..|.--...|..  +              .-.|. .-++.++|.|||++|.
T Consensus        39 ~lt~lvmGkGGvGksstvn~~~Ge~~~~~s~fqseG~rP~~--~--------------sr~r~-GftlniidtPGlieGG  101 (328)
T TIGR00991        39 SLTILVMGKGGVGKSSTVNSIIGERVAAVSAFQSEGLRPVL--V--------------SRTRA-GFTLNIIDTPGLIEGG  101 (328)
T ss_pred             EEEEEEEECCCCCCCHHHHHHHHHHHHHEECCCCCCCCCEE--E--------------EECCC-CCEEEEECCCCCCCCC
T ss_conf             36788860687663101223332023200000025886326--6--------------51246-6157753278610153


Q ss_pred             CCCCC---CHHHHHHHHHCCCEEEEEEC
Q ss_conf             22466---32899998730374788501
Q gi|254780226|r   82 SKGEG---LGNQFLAHIREVDAIIHVLR  106 (367)
Q Consensus        82 ~~G~G---lGN~FL~~ir~aDalihVVd  106 (367)
                      +=..-   .=.+||=+ ...|+|++|=|
T Consensus       102 y~n~~a~~iik~fll~-~tidvllyvdr  128 (328)
T TIGR00991       102 YINDQAVNIIKRFLLD-KTIDVLLYVDR  128 (328)
T ss_pred             CHHHHHHHHHHHHHHH-HHHHHHHHHHH
T ss_conf             0337899999998853-12122100123


No 427
>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein B; InterPro: IPR004435   The majority of molybdenum-containing enzymes utilise a molybdenum cofactor (MoCF or Moco) consisting of a Mo atom coordinated via a cisdithiolene moiety to molybdopterin (MPT). MoCF is ubiquitous in nature, and the pathway for MoCF biosynthesis is conserved in all three domains of life. MoCF-containing enzymes function as oxidoreductases in carbon, nitrogen, and sulphur metabolism , .    In Escherichia coli, biosynthesis of MoCF is a three stage process. It begins with the MoaA and MoaC conversion of GTP to the meta-stable pterin intermediate precursor Z. The second stage involves MPT synthase (MoaD and MoaE), which coverts precursor Z to MPT; MoeB is involved in the recycling of MPT synthase. The final step in MoCF synthesis is the attachment of mononuclear Mo to MPT, a process that requires MoeA and which is enhanced by MogA in an Mg2 ATP-dependent manner . MoCF is the active co-factor in eukaryotic and some prokaryotic molybdoenzymes, but the majority of bacterial enzymes requiring MoCF, need a modification of MTP for it to be active; MobA is involved in the attachment of a nucleotide monophosphate to MPT resulting in the MGD co-factor, the active co-factor for most prokaryotic molybdoenzymes. Bacterial two-hybrid studies have revealed the close interactions between MoeA, MogA, and MobA in the synthesis of MoCF . Moreover the close functional association of MoeA and MogA in the synthesis of MoCF is supported by fact that the known eukaryotic homologues to MoeA and MogA exist as fusion proteins: CNX1 () of Arabidopsis thaliana (Mouse-ear cress), mammalian Gephryin (e.g. Q9NQX3 from SWISSPROT) and Drosophila melanogaster (Fruit fly) Cinnamon (P39205 from SWISSPROT) .   The MobB domain is similar to that of the urease accessory protein UreG and the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocentres of their respective target enzymes. It is involved in the final step of molybdenum-cofactor biosynthesis. While its precise function has not been identified it is thought to be involved in the transfer of a guanine dinucleotide moiety to molybdopterin, as it shows GTP-binding and weak GTPase activity . The MobB protein (P32125 from SWISSPROT) from Escherichia coli, which is comprised of this domain, is a homodimer . Each molecule is composed of two distinct regions - an outer region comprised of 6 beta-strands and three alpha helices, and an inner region comprised of a two-strand beta hairpin followed by an alpha helix. These regions require interaction with the second monomer to allow proper folding to occur. The two monomers are intertwined and form an extensive 16-stranded beta-sheet. While the active site could not be positively identified, the presence of highly conserved residues suggests the substrate binding site occurs in the central solvent channel.; GO: 0005525 GTP binding, 0006777 Mo-molybdopterin cofactor biosynthetic process.
Probab=92.71  E-value=0.058  Score=32.99  Aligned_cols=35  Identities=34%  Similarity=0.559  Sum_probs=29.0

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCC
Q ss_conf             8675288878889999874048987366686744883
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPN   41 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn   41 (367)
                      ++++|.-|+||||+.+++-..  -...+|+-.||+-.
T Consensus         2 ~~i~G~k~SGKTtL~~~l~~~--L~~~Gy~V~~IKH~   36 (165)
T TIGR00176         2 LQIVGYKNSGKTTLIERLVKA--LKARGYRVATIKHD   36 (165)
T ss_pred             EEEEEECCCCHHHHHHHHHHH--HHCCCCCEEEEEEC
T ss_conf             378962588678999999999--97079950898608


No 428
>PRK13637 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=92.65  E-value=0.099  Score=31.43  Aligned_cols=93  Identities=16%  Similarity=0.219  Sum_probs=49.2

Q ss_pred             HCCHHHHHHHHHHHHHHHCCCHHEECC--CHHHHCCCHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHC-----------
Q ss_conf             132677762102357641010010034--3011101013467877886436984033210024665528-----------
Q gi|254780226|r  185 SLDSDAIPIFKSLNLLTAKPILYICNV--SEHDCKKGNIYTEAVQRLASQQNAEMIIISAAIEAEISQL-----------  251 (367)
Q Consensus       185 ~~~~de~~~l~~~~llt~KP~iivaNk--~e~~~~~~n~~~e~i~~l~~~~~~~~i~isa~~E~ei~~l-----------  251 (367)
                      ++|--+...+.=..-+..+|-++++--  +-.|........+.++++..+.+..++.++-.++......           
T Consensus       144 ~LSGGqkQRvaiA~aL~~~P~iLllDEPTs~LDp~~~~~i~~~l~~L~~e~g~Tvi~vTHdl~~v~~~aDRvivl~~G~I  223 (287)
T PRK13637        144 ELSGGQKRRVAIAGVVAMEPKVLILDEPTAGLDPKGRDDILEKIKALHKEYNMTIILVSHSMEDVAKIADRIIVMNKGRC  223 (287)
T ss_pred             HCCHHHHHHHHHHHHHHCCCCEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCEEEEECCCHHHHHHHCCEEEEEECCEE
T ss_conf             29988999999999998399999983886648999999999999999985098999995799999996999999989999


Q ss_pred             ----CCHH---HHHHHHHCCCCCCCHHHHHHHH
Q ss_conf             ----8426---7788775388742289999999
Q gi|254780226|r  252 ----PEEE---RALFMEELDISISGLELLIRSG  277 (367)
Q Consensus       252 ----~~ee---~~e~l~~~~l~~tgl~~li~~~  277 (367)
                          +.+|   +.+.|+..++..+.+..+.+.-
T Consensus       224 v~~Gtp~evf~~~~~l~~~~l~~P~~~~l~~~L  256 (287)
T PRK13637        224 ELQGTPREVFKEVDTLESIGLAVPQVTYLVRKL  256 (287)
T ss_pred             EEECCHHHHHCCHHHHHHCCCCCCHHHHHHHHH
T ss_conf             998788998769889987699999199999999


No 429
>COG4988 CydD ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]
Probab=92.64  E-value=0.13  Score=30.71  Aligned_cols=24  Identities=33%  Similarity=0.454  Sum_probs=20.7

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCC
Q ss_conf             486752888788899998740489
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTAS   27 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~   27 (367)
                      +++|||...+||||+.|++-|...
T Consensus       349 ~talvG~SGaGKSTLl~lL~G~~~  372 (559)
T COG4988         349 LTALVGASGAGKSTLLNLLLGFLA  372 (559)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCC
T ss_conf             799988999978999999847577


No 430
>PRK10218 GTP-binding protein; Provisional
Probab=92.61  E-value=0.86  Score=25.09  Aligned_cols=91  Identities=23%  Similarity=0.306  Sum_probs=53.5

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCC--CCCCCCCCCCCCC-----EEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCC
Q ss_conf             4867528887888999987404898--7366686744883-----37997685558777642186502335799985122
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASA--QAANYPFCTIEPN-----SGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAG   76 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~--~~~~ypFtTi~pn-----~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaG   76 (367)
                      -||||+---.||||+--++-..+.+  +...-.-++.|-|     +|+.-        .++. -+-.+-..+|.++|.||
T Consensus         7 NiaIIAHvDhGKTTL~d~lL~~tG~~~~~~~~~~~~mD~~~~ErERGITI--------~a~~-~~~~~~~~~iNiIDTPG   77 (607)
T PRK10218          7 NIAIIAHVDHGKTTLVDKLLQQSGTFDSRAETQERVMDSNDLEKERGITI--------LAKN-TAIKWNDYRINIVDTPG   77 (607)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHCCCCCCCCCHHHCCCCCHHHHHCCCEE--------EEEE-EEEEECCEEEEEECCCC
T ss_conf             48999756889889999999972898644541120147868898759726--------2304-89960878997865998


Q ss_pred             CCCCCCCCCCCHHHHHHHHHCCCEEEEEECCCCC
Q ss_conf             3543222466328999987303747885012345
Q gi|254780226|r   77 LVRGASKGEGLGNQFLAHIREVDAIIHVLRCFKD  110 (367)
Q Consensus        77 Lv~gA~~G~GlGN~FL~~ir~aDalihVVdaf~~  110 (367)
                      -+--       |-++-.-+|-||..+.||||++.
T Consensus        78 H~DF-------~gEVeR~L~~~DGalLvVDA~eG  104 (607)
T PRK10218         78 HADF-------GGEVERVMSMVDSVLLVVDAFDG  104 (607)
T ss_pred             CCCC-------HHHHHHHHHHCCEEEEEEECCCC
T ss_conf             5430-------14889789766848999978878


No 431
>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]
Probab=92.60  E-value=0.17  Score=29.83  Aligned_cols=38  Identities=37%  Similarity=0.605  Sum_probs=29.3

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHH
Q ss_conf             86752888788899998740489873666867448833799768555877
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHK   54 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~   54 (367)
                      ++|+|.-.+||||+++++.+.            +.|..|.+.+....+..
T Consensus        31 ~~iiGpNG~GKSTLLk~l~~~------------l~p~~G~V~l~g~~i~~   68 (258)
T COG1120          31 TGILGPNGSGKSTLLKCLAGL------------LKPKSGEVLLDGKDIAS   68 (258)
T ss_pred             EEEECCCCCCHHHHHHHHHCC------------CCCCCCEEEECCCCHHH
T ss_conf             999899888999999998656------------78888779999972454


No 432
>PRK13409 putative ATPase RIL; Provisional
Probab=92.54  E-value=0.2  Score=29.40  Aligned_cols=27  Identities=30%  Similarity=0.379  Sum_probs=22.3

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCC
Q ss_conf             248675288878889999874048987
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQ   29 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~   29 (367)
                      -.+||||-=.+||||+++.|+|.-.+.
T Consensus       100 ~v~GLiG~NGaGKST~lkILsG~l~Pn  126 (590)
T PRK13409        100 KVTGILGPNGIGKSTAVKILSGELIPN  126 (590)
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCCC
T ss_conf             789988999998999999995871488


No 433
>pfam04735 Baculo_helicase Baculovirus DNA helicase.
Probab=92.53  E-value=0.075  Score=32.26  Aligned_cols=17  Identities=29%  Similarity=0.468  Sum_probs=8.0

Q ss_pred             EECCCCCCCCCCCCCCHH
Q ss_conf             851223543222466328
Q gi|254780226|r   72 VDIAGLVRGASKGEGLGN   89 (367)
Q Consensus        72 iDvaGLv~gA~~G~GlGN   89 (367)
                      +|++-.||=-|- |-|||
T Consensus       151 i~i~~~IPL~hh-r~LGn  167 (1173)
T pfam04735       151 IDIGDYIPLIHN-RRLGN  167 (1173)
T ss_pred             CCCCCCCCCCCC-CCCCC
T ss_conf             846777335677-74777


No 434
>COG4987 CydC ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]
Probab=92.52  E-value=0.14  Score=30.45  Aligned_cols=33  Identities=33%  Similarity=0.555  Sum_probs=25.2

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEEC
Q ss_conf             248675288878889999874048987366686744883379976
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAV   47 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v   47 (367)
                      =|+.|+|...+||||+++.+++.=            +|+.|.+..
T Consensus       365 EkvAIlG~SGsGKSTllqLl~~~~------------~~~~G~i~~  397 (573)
T COG4987         365 EKVAILGRSGSGKSTLLQLLAGAW------------DPQQGSITL  397 (573)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHCC------------CCCCCEEEE
T ss_conf             768887799987899999997235------------878873657


No 435
>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters.  PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes.  This PDR subfamily represents domain I of its (ABC-IM)2 organization.  ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules.  The nucleotide-binding domain shows the highest similarity between all members of the family.  ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=92.52  E-value=0.1  Score=31.37  Aligned_cols=22  Identities=36%  Similarity=0.514  Sum_probs=20.1

Q ss_pred             EEEEEECCCCCHHHHHHHHHCC
Q ss_conf             4867528887888999987404
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRT   25 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~   25 (367)
                      .+||+|...+||||+++.++|.
T Consensus        35 i~~llG~nGsGKSTLl~~l~G~   56 (202)
T cd03233          35 MVLVLGRPGSGCSTLLKALANR   56 (202)
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             9999989999889999998378


No 436
>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos).  The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis.  In members of Carb_Monos family the single hydrophobic gene product forms a homodimer, while the ABC protein represents a fusion of two nucleotide-binding domains.  However, it is assumed that two copies of the ABC domains are present in the assembled transporter.
Probab=92.51  E-value=0.09  Score=31.72  Aligned_cols=32  Identities=38%  Similarity=0.565  Sum_probs=25.1

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             86752888788899998740489873666867448833799768
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      +||+|.-.+||||++++++|.-            .|..|.+.+-
T Consensus        29 ~~liG~nGaGKSTll~~l~G~~------------~p~~G~I~~~   60 (182)
T cd03215          29 VGIAGLVGNGQTELAEALFGLR------------PPASGEITLD   60 (182)
T ss_pred             EEEECCCCCCCCHHHHHHCCCC------------CCCCCEEEEC
T ss_conf             9998889999263778766986------------7887759999


No 437
>PRK13633 cobalt transporter ATP-binding subunit; Provisional
Probab=92.43  E-value=0.14  Score=30.41  Aligned_cols=91  Identities=13%  Similarity=0.202  Sum_probs=45.3

Q ss_pred             HCCHHHHHHHHHHHHHHHCCCHHEECC--CHHHHCCCHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHC-----------
Q ss_conf             132677762102357641010010034--3011101013467877886436984033210024665528-----------
Q gi|254780226|r  185 SLDSDAIPIFKSLNLLTAKPILYICNV--SEHDCKKGNIYTEAVQRLASQQNAEMIIISAAIEAEISQL-----------  251 (367)
Q Consensus       185 ~~~~de~~~l~~~~llt~KP~iivaNk--~e~~~~~~n~~~e~i~~l~~~~~~~~i~isa~~E~ei~~l-----------  251 (367)
                      .++--+...+.=..-+..+|-++++--  +-.|........+.++++..+.+..++.++-.++... +.           
T Consensus       145 ~LSGGqkQRvaiA~aLa~~P~iLilDEPTs~LDp~~~~~i~~~l~~l~~e~g~Tii~vTHdl~~~~-~aDrv~vm~~G~I  223 (281)
T PRK13633        145 LLSGGQKQRVAIAGILAMRPECIIFDEPTAMLDPSGRREVVNTIKELNKKYGITIILITHYMEEAV-EADRIIVMDKGKV  223 (281)
T ss_pred             HCCHHHHHHHHHHHHHHCCCCEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCEEEEECCCHHHHH-CCCEEEEEECCEE
T ss_conf             089859999999999985999999818734389899999999999999840989999867889997-3998999989999


Q ss_pred             ----CCHH---HHHHHHHCCCCCCCHHHHHHH
Q ss_conf             ----8426---778877538874228999999
Q gi|254780226|r  252 ----PEEE---RALFMEELDISISGLELLIRS  276 (367)
Q Consensus       252 ----~~ee---~~e~l~~~~l~~tgl~~li~~  276 (367)
                          +.+|   +.+.|+..++..+-+-++...
T Consensus       224 v~~G~p~evf~~~~~L~~~~l~~P~~~~l~~~  255 (281)
T PRK13633        224 VMEGTPKEIFKEVEMMKKIGLDVPQVTELAYE  255 (281)
T ss_pred             EEECCHHHHHCCHHHHHHCCCCCCCHHHHHHH
T ss_conf             99779999976988999779999919999999


No 438
>PRK13634 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=92.39  E-value=0.11  Score=31.04  Aligned_cols=92  Identities=12%  Similarity=0.166  Sum_probs=47.8

Q ss_pred             HCCHHHHHHHHHHHHHHHCCCHHEECC--CHHHHCCCHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHC-----------
Q ss_conf             132677762102357641010010034--3011101013467877886436984033210024665528-----------
Q gi|254780226|r  185 SLDSDAIPIFKSLNLLTAKPILYICNV--SEHDCKKGNIYTEAVQRLASQQNAEMIIISAAIEAEISQL-----------  251 (367)
Q Consensus       185 ~~~~de~~~l~~~~llt~KP~iivaNk--~e~~~~~~n~~~e~i~~l~~~~~~~~i~isa~~E~ei~~l-----------  251 (367)
                      ++|--+...+.=..-+...|-++++--  +-.|........+.+.++..+.+..++.++=.++....+.           
T Consensus       132 ~LSGGqkQRVaIA~aLa~~P~iLllDEPTs~LD~~~~~~i~~ll~~L~~e~g~Tii~vTHdl~~~~~~aDrvivm~~G~I  211 (276)
T PRK13634        132 ELSGGQMRRVAIAGVLAMEPEVLVLDEPTAGLDPKGRKEIMEMFYKLHKEKGLTTVLVTHSMEDAARYADQIVVMHKGTV  211 (276)
T ss_pred             HCCHHHHHHHHHHHHHHCCCCEEEECCCCCCCCHHHHHHHHHHHHHHHHHCCCEEEEECCCHHHHHHHCCEEEEEECCEE
T ss_conf             18999999999999997299989976985427999999999999999996199999986799999997999999989999


Q ss_pred             ----CCHHH---HHHHHHCCCCCCCHHHHHHH
Q ss_conf             ----84267---78877538874228999999
Q gi|254780226|r  252 ----PEEER---ALFMEELDISISGLELLIRS  276 (367)
Q Consensus       252 ----~~ee~---~e~l~~~~l~~tgl~~li~~  276 (367)
                          +.+|-   -+.|+..++..+-+-++.+.
T Consensus       212 v~~G~p~evf~~p~~l~~~~l~~P~~~~l~~~  243 (276)
T PRK13634        212 FLQGTPREIFSHPDELEAIGLDLPETVKFKRA  243 (276)
T ss_pred             EEECCHHHHHCCHHHHHHCCCCCCHHHHHHHH
T ss_conf             99878999972999999779999969999999


No 439
>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein; InterPro: IPR012693   ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions 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 hydrolyze 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 polarize 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 , , , , , .   Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1).     Phosphonates are a class of phosphorus-containing organic compound with a stable direct C-P bond rather than a C-O-P linkage. A number of bacterial species have operons, typically about 14 genes in size, with genes for ATP-dependent transport of phosphonates, degradation, and regulation of the expression of the system. Members of this protein family are the ATP-binding cassette component of tripartite ABC transporters of phosphonates.; GO: 0005524 ATP binding, 0015416 phosphonate transmembrane-transporting ATPase activity, 0015716 phosphonate transport, 0016020 membrane.
Probab=92.38  E-value=0.19  Score=29.58  Aligned_cols=37  Identities=30%  Similarity=0.540  Sum_probs=26.7

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEE------EEECCCH
Q ss_conf             867528887888999987404898736668674488337------9976855
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSG------EVAVPDP   50 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g------~~~v~d~   50 (367)
                      ++|||+..+|||||.-.+-++..   +      -+|+-|      .+.+.+.
T Consensus        31 ~~~IG~SGAGKSTLLR~iNrL~~---G------dk~~~Geilidf~i~~~g~   73 (253)
T TIGR02315        31 VAVIGPSGAGKSTLLRCINRLVE---G------DKPSSGEILIDFSILLEGT   73 (253)
T ss_pred             EEEECCCCCCHHHHHHHHHHHCC---C------CCCCCCEEEEEEEEEECCC
T ss_conf             99973788726799987753026---8------8887650898888887273


No 440
>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=92.38  E-value=0.13  Score=30.60  Aligned_cols=33  Identities=30%  Similarity=0.492  Sum_probs=26.4

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             867528887888999987404898736668674488337997685
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      ++|+|...+||||+++.+.+..            .|..|.+.+-+
T Consensus        30 v~i~GpSGsGKSTLl~~i~gl~------------~p~sG~i~i~g   62 (214)
T cd03292          30 VFLVGPSGAGKSTLLKLIYKEE------------LPTSGTIRVNG   62 (214)
T ss_pred             EEEECCCCCHHHHHHHHHHCCC------------CCCCEEEEECC
T ss_conf             9999799953999999996298------------98864999999


No 441
>PRK11153 metN DL-methionine transporter ATP-binding subunit; Provisional
Probab=92.30  E-value=0.13  Score=30.70  Aligned_cols=31  Identities=42%  Similarity=0.668  Sum_probs=24.7

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEEC
Q ss_conf             8675288878889999874048987366686744883379976
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAV   47 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v   47 (367)
                      +||+|...+||||+++.+.+..            .|..|.+.+
T Consensus        34 ~giIG~SGaGKSTLlr~i~gL~------------~ptsG~I~~   64 (343)
T PRK11153         34 YGVIGASGAGKSTLIRCVNLLE------------RPTSGSVIV   64 (343)
T ss_pred             EEEECCCCCHHHHHHHHHHCCC------------CCCCEEEEE
T ss_conf             9999999986999999996599------------999639999


No 442
>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein; InterPro: IPR013505   ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions 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 hydrolyze 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 polarize 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 , , , , , .   Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1).     FtsE is an ABC transporter ATP-binding protein. This protein and its permease partner FtsX, localize to the cell division site. In a number of species, the ftsEX gene pair is located next to ftsY, which encodes the signal recognition particle-docki ng protein.; GO: 0005524 ATP binding, 0051301 cell division.
Probab=92.21  E-value=0.1  Score=31.28  Aligned_cols=41  Identities=22%  Similarity=0.437  Sum_probs=30.2

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHH
Q ss_conf             86752888788899998740489873666867448833799768555877764
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAE   57 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~   57 (367)
                      +=|+|-..+|||||.+.+.+..            .|+.|.+.+----+.+|.+
T Consensus        32 ~fL~GHSGaGKST~lkLi~~~~------------~P~~G~i~~~G~d~~~L~~   72 (216)
T TIGR00960        32 VFLVGHSGAGKSTLLKLILGIE------------KPTRGKIRFSGQDLTRLRG   72 (216)
T ss_pred             EEEECCCCCCHHHHHHHHHHHC------------CCCCCEEEECCCCCCCCCC
T ss_conf             9985688860789999998522------------8998607871542100157


No 443
>PRK09700 D-allose transporter ATP-binding protein; Provisional
Probab=92.20  E-value=0.14  Score=30.44  Aligned_cols=21  Identities=33%  Similarity=0.555  Sum_probs=15.5

Q ss_pred             EEEEECCCCCHHHHHHHHHCC
Q ss_conf             867528887888999987404
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRT   25 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~   25 (367)
                      +||+|...+||||||++++|.
T Consensus       292 ~gl~G~nGsGKsTL~~~l~Gl  312 (510)
T PRK09700        292 LGFAGLVGSGRTELMNCLFGV  312 (510)
T ss_pred             EEEECCCCCCHHHHHHHHHCC
T ss_conf             999768886288999998198


No 444
>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment.  ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.  The nucleotide binding domain shows the highest similarity between all members of the family.  ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=92.20  E-value=0.14  Score=30.45  Aligned_cols=35  Identities=29%  Similarity=0.542  Sum_probs=27.9

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCH
Q ss_conf             48675288878889999874048987366686744883379976855
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDP   50 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~   50 (367)
                      -++|+|...+||||+++.+.|..            .|..|.+.+...
T Consensus        28 ~~~ivGpSG~GKSTllr~i~Gl~------------~p~~G~I~~~g~   62 (178)
T cd03229          28 IVALLGPSGSGKSTLLRCIAGLE------------EPDSGSILIDGE   62 (178)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCC------------CCCCEEEEECCE
T ss_conf             99999999983999999998599------------999639999999


No 445
>PRK13643 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=92.19  E-value=0.14  Score=30.43  Aligned_cols=32  Identities=38%  Similarity=0.579  Sum_probs=25.2

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEEC
Q ss_conf             48675288878889999874048987366686744883379976
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAV   47 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v   47 (367)
                      .+||+|-..+|||||++.++|.-            .|..|.+.+
T Consensus        34 ~vaiiG~nGsGKSTLl~~l~Gll------------~p~~G~V~~   65 (288)
T PRK13643         34 YTALIGHTGSGKSTLLQHLNGLL------------QPTEGKVTV   65 (288)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCC------------CCCCCEEEE
T ss_conf             99999999947999999997488------------888856999


No 446
>PRK10982 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional
Probab=92.19  E-value=0.15  Score=30.30  Aligned_cols=22  Identities=32%  Similarity=0.422  Sum_probs=20.1

Q ss_pred             EEEEEECCCCCHHHHHHHHHCC
Q ss_conf             4867528887888999987404
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRT   25 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~   25 (367)
                      -+||+|...+||||++++++|.
T Consensus        26 i~~liG~nGsGKSTL~~~l~Gl   47 (491)
T PRK10982         26 IHALMGENGAGKSTLLKCLFGI   47 (491)
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             9999899998199999999569


No 447
>PRK07261 topology modulation protein; Provisional
Probab=92.18  E-value=0.12  Score=30.87  Aligned_cols=79  Identities=29%  Similarity=0.371  Sum_probs=48.0

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCC---EEEEECCCHHHHH-HHHHCCCCEEEEEEEEEEECCCCC
Q ss_conf             248675288878889999874048987366686744883---3799768555877-764218650233579998512235
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPN---SGEVAVPDPRMHK-LAEIAESKDLVPTRMSFVDIAGLV   78 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn---~g~~~v~d~~~~~-l~~~~~~~~~~p~~i~~iDvaGLv   78 (367)
                      |||=|||-|.+|||||=..|.     +.-+.|...+|.-   .|-...|+..+.. +.++....+      -++|     
T Consensus         1 MrI~IiG~sGsGKSTlAr~L~-----~~~~ip~~~LD~l~w~p~w~~~~~~e~~~~~~~~~~~~~------WIiD-----   64 (171)
T PRK07261          1 MKIAIIGYSGSGKSTLARFLG-----QHYNCPVLHLDQLHFSSNWQERDDDDMIADISNFLLKQD------WIIE-----   64 (171)
T ss_pred             CEEEEECCCCCCHHHHHHHHH-----HHHCCCEEEECCEEECCCCEECCHHHHHHHHHHHHHCCC------EEEE-----
T ss_conf             989998899986899999999-----987979797022788899988889999999999984898------7994-----


Q ss_pred             CCCCCCCCCHHHHH--HHHHCCCEEEEE
Q ss_conf             43222466328999--987303747885
Q gi|254780226|r   79 RGASKGEGLGNQFL--AHIREVDAIIHV  104 (367)
Q Consensus        79 ~gA~~G~GlGN~FL--~~ir~aDalihV  104 (367)
                       |.+      .+.|  --+..||.||.+
T Consensus        65 -Gny------~~~~~~~rl~~aD~iI~L   85 (171)
T PRK07261         65 -GNY------SNCLYEERMAEADQIIFL   85 (171)
T ss_pred             -CCC------CCHHHHHHHHHCCEEEEE
T ss_conf             -785------124777679779999998


No 448
>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport.  Other members of this system include the MetP permease and  the MetQ substrate binding protein.  ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=92.17  E-value=0.1  Score=31.32  Aligned_cols=33  Identities=42%  Similarity=0.608  Sum_probs=25.3

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             486752888788899998740489873666867448833799768
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      -+||||...+||||+++.+.+...            |..|.+.+.
T Consensus        33 ~~~ivG~SGsGKSTllr~i~gL~~------------p~sG~I~~~   65 (233)
T cd03258          33 IFGIIGRSGAGKSTLIRCINGLER------------PTSGSVLVD   65 (233)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCCC------------CCCCEEEEC
T ss_conf             999988980589999999967999------------998089999


No 449
>PRK13650 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=92.14  E-value=0.15  Score=30.27  Aligned_cols=93  Identities=12%  Similarity=0.127  Sum_probs=49.2

Q ss_pred             HHCCHHHHHHHHHHHHHHHCCCHHEECCCH--HHHCCCHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHC----------
Q ss_conf             313267776210235764101001003430--11101013467877886436984033210024665528----------
Q gi|254780226|r  184 ESLDSDAIPIFKSLNLLTAKPILYICNVSE--HDCKKGNIYTEAVQRLASQQNAEMIIISAAIEAEISQL----------  251 (367)
Q Consensus       184 ~~~~~de~~~l~~~~llt~KP~iivaNk~e--~~~~~~n~~~e~i~~l~~~~~~~~i~isa~~E~ei~~l----------  251 (367)
                      ..+|--+...+.=..-+..+|-++++--.=  .|........+.++++..+.+..++.++-.++. +...          
T Consensus       136 ~~LSGGQrQRvaIA~aLa~~P~lLilDEPTs~LD~~~~~~i~~~l~~l~~~~g~Tvi~iTHdl~~-v~~aDrvivm~~G~  214 (276)
T PRK13650        136 ARLSGGQKQRVAIAGAVAMRPKIIILDEATSMLDPEGRLELIKTIKNIRDDYQLTVISITHDLDE-VALSDRVLVMKDGQ  214 (276)
T ss_pred             HHCCHHHHHHHHHHHHHHCCCCEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCEEEEEEECHHH-HHCCCEEEEEECCE
T ss_conf             33899999999999999739999998388665899999999999999998429899999577899-96099999998999


Q ss_pred             -----CCHH---HHHHHHHCCCCCCCHHHHHHHH
Q ss_conf             -----8426---7788775388742289999999
Q gi|254780226|r  252 -----PEEE---RALFMEELDISISGLELLIRSG  277 (367)
Q Consensus       252 -----~~ee---~~e~l~~~~l~~tgl~~li~~~  277 (367)
                           +.+|   +.+.++..++..+.+.++.+.-
T Consensus       215 Iv~~Gtp~evf~~p~~l~~~~l~~P~~~~~~~~L  248 (276)
T PRK13650        215 VESTSTPRELFSRGDELLQLGLDIPFTTSLVQML  248 (276)
T ss_pred             EEEECCHHHHHCCHHHHHHCCCCCCHHHHHHHHH
T ss_conf             9997689999749899997799998699999999


No 450
>COG1122 CbiO ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=92.13  E-value=0.17  Score=29.94  Aligned_cols=24  Identities=33%  Similarity=0.405  Sum_probs=21.0

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCC
Q ss_conf             486752888788899998740489
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTAS   27 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~   27 (367)
                      .++|+|.+.+||||+++.++|.-.
T Consensus        32 ~~~i~G~nGsGKSTL~~~l~GLl~   55 (235)
T COG1122          32 RVLLIGPNGSGKSTLLKLLNGLLK   55 (235)
T ss_pred             EEEEECCCCCCHHHHHHHHCCCCC
T ss_conf             999988999889999999537676


No 451
>PRK13543 cytochrome c biogenesis protein CcmA; Provisional
Probab=92.11  E-value=0.17  Score=29.84  Aligned_cols=32  Identities=25%  Similarity=0.360  Sum_probs=25.6

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEEC
Q ss_conf             48675288878889999874048987366686744883379976
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAV   47 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v   47 (367)
                      .++|+|.-.+||||+++.++|.-            .|..|.+.+
T Consensus        39 ~~~l~GpNGaGKTTLlr~l~Gl~------------~p~~G~I~~   70 (214)
T PRK13543         39 ALLVQGDNGAGKTTLLRVLAGLL------------HVESGQIQI   70 (214)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC------------CCCCEEEEE
T ss_conf             99999999987999999997697------------788419999


No 452
>PRK13640 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=92.10  E-value=0.12  Score=30.85  Aligned_cols=87  Identities=14%  Similarity=0.206  Sum_probs=43.9

Q ss_pred             HCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHC-----CCHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHC--------
Q ss_conf             132677762102357641010010034301110-----1013467877886436984033210024665528--------
Q gi|254780226|r  185 SLDSDAIPIFKSLNLLTAKPILYICNVSEHDCK-----KGNIYTEAVQRLASQQNAEMIIISAAIEAEISQL--------  251 (367)
Q Consensus       185 ~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~-----~~n~~~e~i~~l~~~~~~~~i~isa~~E~ei~~l--------  251 (367)
                      .++--+...+.=..-+..+|-+++.-  | +.+     ......+.++++..+.+..++.++-.++.. .+.        
T Consensus       144 ~LSGGqkQRvaiA~aLa~~P~iLllD--E-PTs~LD~~~~~~i~~~l~~l~~e~g~TvI~itHd~~~a-~~aDrv~vm~~  219 (283)
T PRK13640        144 NLSGGQKQRVAIAGILAVEPQIIILD--E-STSMLDPAGKEQILKLIRKLMKDNNLTIISITHDIDEA-AGADQVLVLDD  219 (283)
T ss_pred             HCCHHHHHHHHHHHHHHCCCCEEEEC--C-CCCCCCHHHHHHHHHHHHHHHHCCCCEEEEEEECHHHH-HHCCEEEEEEC
T ss_conf             29999999999999997199999976--8-74548989999999999999970698999997887899-70998999999


Q ss_pred             -------CCH---HHHHHHHHCCCCCCCHHHHHH
Q ss_conf             -------842---677887753887422899999
Q gi|254780226|r  252 -------PEE---ERALFMEELDISISGLELLIR  275 (367)
Q Consensus       252 -------~~e---e~~e~l~~~~l~~tgl~~li~  275 (367)
                             +.+   ++.++++..++..+-+-++.+
T Consensus       220 G~iv~~G~p~evf~~~~~l~~~~l~~P~~~~l~~  253 (283)
T PRK13640        220 GKLLAQGSPVEIFPKVELLKRIGLDIPFVYKLKL  253 (283)
T ss_pred             CEEEEECCHHHHHCCHHHHHHCCCCCCHHHHHHH
T ss_conf             9999977789985799999977999996999999


No 453
>PRK04040 adenylate kinase; Provisional
Probab=92.09  E-value=0.13  Score=30.54  Aligned_cols=24  Identities=33%  Similarity=0.469  Sum_probs=21.4

Q ss_pred             CCCEEEEEECCCCCHHHHHHHHHC
Q ss_conf             982486752888788899998740
Q gi|254780226|r    1 MGFKCGIIGLPNVGKSTLFNALTR   24 (367)
Q Consensus         1 m~~kiGlvG~pn~GKST~f~alT~   24 (367)
                      |.+++=++|-|.|||||+.+.+.+
T Consensus         1 ~~k~VvvtGiPGvGKTTv~~~~~~   24 (189)
T PRK04040          1 MMKVVVVTGVPGVGKTTVLNKALE   24 (189)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
T ss_conf             941899975898878999999999


No 454
>TIGR01271 CFTR_protein cystic fibrosis transmembrane conductor regulator (CFTR); InterPro: IPR005291   ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions 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 hydrolyze 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 polarize 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 , , , , , .   Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1).    These proteins are integral membrane proteins and they are involved in the transport of chloride ions. Many of these proteins are the cystis fibrosis transmembrane conductor regulators (CFTR) in eukaryotes. The principal role of this protein is chloride ion conductance. The protein is predicted to consist of 12 transmembrane domains. Mutations or lesions in the genetic loci have been linked to the aetiology of asthma, bronchiectasis, chronic obstructive pulmonary disease etc. Disease-causing mutations have been studied by 36Cl efflux assays in vitro cell cultures and electrophysiology, all of which point to the impairment of chloride channel stability and not the biosynthetic processing per se.; GO: 0005254 chloride channel activity, 0006811 ion transport, 0016020 membrane.
Probab=92.09  E-value=0.12  Score=30.92  Aligned_cols=25  Identities=44%  Similarity=0.628  Sum_probs=21.4

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCC
Q ss_conf             2486752888788899998740489
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTAS   27 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~   27 (367)
                      =++|+.|-+.+||||+++|+=++..
T Consensus      1287 Q~VGlLGRTGsGKSTLLSAlLRL~~ 1311 (1534)
T TIGR01271      1287 QRVGLLGRTGSGKSTLLSALLRLLS 1311 (1534)
T ss_pred             CEEEEEECCCCCHHHHHHHHHHHCC
T ss_conf             3577530268767899999999607


No 455
>PRK10851 sulfate/thiosulfate transporter subunit; Provisional
Probab=92.08  E-value=0.14  Score=30.52  Aligned_cols=32  Identities=22%  Similarity=0.439  Sum_probs=25.5

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             86752888788899998740489873666867448833799768
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      ++|+|...+||||+++.++|..            .|..|.+.+-
T Consensus        31 ~~llGpSGsGKSTLlr~iaGL~------------~p~sG~I~~~   62 (352)
T PRK10851         31 VALLGPSGSGKTTLLRIIAGLE------------HQTSGHIRFH   62 (352)
T ss_pred             EEEECCCCCHHHHHHHHHHCCC------------CCCCEEEEEC
T ss_conf             9999999846999999997699------------9995699999


No 456
>COG1132 MdlB ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]
Probab=92.02  E-value=0.16  Score=29.96  Aligned_cols=33  Identities=42%  Similarity=0.629  Sum_probs=27.1

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEEC
Q ss_conf             248675288878889999874048987366686744883379976
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAV   47 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v   47 (367)
                      =++||||...+||||+.+.+.+.-            +|+.|.+.+
T Consensus       356 e~vaiVG~sGsGKSTl~~LL~r~~------------~~~~G~I~i  388 (567)
T COG1132         356 EKVAIVGPSGSGKSTLIKLLLRLY------------DPTSGEILI  388 (567)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHC------------CCCCCEEEE
T ss_conf             878885588885789999998615------------888836989


No 457
>TIGR01184 ntrCD nitrate ABC transporter, ATP-binding proteins C and D; InterPro: IPR005890   ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions 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 hydrolyze 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 polarize 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 , , , , , .   Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1).     This model describes the ATP binding subunits of nitrate transport in bacteria and archaea. This protein belongs to the ATP-binding cassette (ABC) superfamily. It is thought that the two subunits encoded by ntrC and ntrD form the binding surface for interaction with ATP. This model is restricted in identifying ATP binding subunit associated with the nitrate transport. Nitrate assimilation is aided by other proteins derived from the operon which among others include products of ntrA - a regulatory protein; ntrB - a hydropbobic transmembrane permease and narB - a reductase. ; GO: 0015112 nitrate transmembrane transporter activity, 0015706 nitrate transport, 0016020 membrane.
Probab=92.02  E-value=0.15  Score=30.22  Aligned_cols=23  Identities=39%  Similarity=0.570  Sum_probs=20.8

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCC
Q ss_conf             86752888788899998740489
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTAS   27 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~   27 (367)
                      |-++|-..+||||++|.+.|.+.
T Consensus        14 isliGHSGCGKSTLLNli~Gl~~   36 (230)
T TIGR01184        14 ISLIGHSGCGKSTLLNLISGLAQ   36 (230)
T ss_pred             EEEECCCCCCHHHHHHHHHHCCC
T ss_conf             99851278617899999850057


No 458
>PRK11288 araG L-arabinose transporter ATP-binding protein; Provisional
Probab=91.98  E-value=0.16  Score=30.09  Aligned_cols=22  Identities=32%  Similarity=0.481  Sum_probs=20.1

Q ss_pred             EEEEEECCCCCHHHHHHHHHCC
Q ss_conf             4867528887888999987404
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRT   25 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~   25 (367)
                      .+||+|.-.+||||+++.++|.
T Consensus        32 ~~~lvG~nGaGKSTL~~~l~G~   53 (501)
T PRK11288         32 VHALMGENGAGKSTLLKILSGN   53 (501)
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             9999899998199999998479


No 459
>COG0419 SbcC ATPase involved in DNA repair [DNA replication, recombination, and repair]
Probab=91.97  E-value=0.29  Score=28.29  Aligned_cols=22  Identities=36%  Similarity=0.487  Sum_probs=19.1

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCC
Q ss_conf             86752888788899998740489
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTAS   27 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~   27 (367)
                      ..|+|...+||||+|.|+| .+.
T Consensus        28 ~lI~G~nGsGKSSIldAI~-~AL   49 (908)
T COG0419          28 FLIVGPNGAGKSSILDAIT-FAL   49 (908)
T ss_pred             EEEECCCCCCHHHHHHHHH-HHH
T ss_conf             7998999997889999999-998


No 460
>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively.  Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP.  HisP has properties intermediate between those of integral and peripheral membrane proteins and is accessible from both sides of the membrane, presumably by its interaction with HisQ and HisM.  The two HisP subunits form a homodimer within the complex.  The domain structure of the amino acid uptake systems is typical for prokaryote extracellular solute binding protein-dependent uptake systems.  All of the amino acid uptake systems also have at least one, and in a few cases, two extracellular solute binding proteins located in the periplasm of Gram-negative bacteria, or attached to the cell membrane of Gram-positive bacteria.  The best-studied member of the PAAT (polar amino acid transport) family is the HisJQM
Probab=91.95  E-value=0.16  Score=30.10  Aligned_cols=32  Identities=38%  Similarity=0.591  Sum_probs=25.7

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             86752888788899998740489873666867448833799768
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      ++|+|...+||||+++.+.++.            .|..|.+.+.
T Consensus        29 ~~ivGpSGsGKSTLL~~i~gL~------------~p~~G~i~i~   60 (213)
T cd03262          29 VVIIGPSGSGKSTLLRCINLLE------------EPDSGTIIID   60 (213)
T ss_pred             EEEECCCCCHHHHHHHHHHCCC------------CCCCEEEEEC
T ss_conf             9999999844999999998199------------9986499999


No 461
>cd03295 ABC_OpuCA_Osmoprotection OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment.  ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.  The nucleotide binding domain shows the highest similarity between all members of the family.  ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition, to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=91.93  E-value=0.15  Score=30.19  Aligned_cols=33  Identities=33%  Similarity=0.508  Sum_probs=26.5

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             486752888788899998740489873666867448833799768
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      -++|+|-..+||||+++.++|.-            +|..|.+.+.
T Consensus        29 ~~~ilGpSG~GKSTllr~i~gl~------------~p~~G~I~i~   61 (242)
T cd03295          29 FLVLIGPSGSGKTTTMKMINRLI------------EPTSGEIFID   61 (242)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCC------------CCCCEEEEEC
T ss_conf             99999999956999999997599------------9981599999


No 462
>COG1341 Predicted GTPase or GTP-binding protein [General function prediction only]
Probab=91.92  E-value=0.35  Score=27.70  Aligned_cols=93  Identities=23%  Similarity=0.368  Sum_probs=54.4

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEE----------CCCH-----------------------
Q ss_conf             4867528887888999987404898736668674488337997----------6855-----------------------
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVA----------VPDP-----------------------   50 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~----------v~d~-----------------------   50 (367)
                      ++-++|--+||||||-.-++ +.. -.-.|+-+-||.-+|.-.          .|..                       
T Consensus        75 ~vmvvG~vDSGKSTLt~~La-N~~-l~rG~~v~iiDaDvGQ~ei~pPg~ISL~~~~s~~~~L~~l~~~~~~FvG~isP~~  152 (398)
T COG1341          75 VVMVVGPVDSGKSTLTTYLA-NKL-LARGRKVAIIDADVGQSEIGPPGFISLAFPESPVISLSELEPFTLYFVGSISPQG  152 (398)
T ss_pred             EEEEECCCCCCHHHHHHHHH-HHH-HHCCCEEEEEECCCCCCCCCCCCEEEEECCCCCCCCHHHCCCCCEEEEECCCCCC
T ss_conf             89998986767889999999-887-6447418999689997666797467741256777777775865227985147777


Q ss_pred             -------HHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCCCCCCHHHHHHH---HHCCCEEEEEECC
Q ss_conf             -------58777642186502335799985122354322246632899998---7303747885012
Q gi|254780226|r   51 -------RMHKLAEIAESKDLVPTRMSFVDIAGLVRGASKGEGLGNQFLAH---IREVDAIIHVLRC  107 (367)
Q Consensus        51 -------~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~G~GlGN~FL~~---ir~aDalihVVda  107 (367)
                             |..+|.+.....    +.+-++|.+|.|.|..     |=+++.+   .-+.|.++.+=|+
T Consensus       153 ~~~~~i~~v~rL~~~a~~~----~~~ilIdT~GWi~G~~-----g~elk~~li~~ikP~~Ii~l~~~  210 (398)
T COG1341         153 FPGRYIAGVARLVDLAKKE----ADFILIDTDGWIKGWG-----GLELKRALIDAIKPDLIIALERA  210 (398)
T ss_pred             CHHHHHHHHHHHHHHHHCC----CCEEEECCCCCEECCH-----HHHHHHHHHHHCCCCEEEEECCC
T ss_conf             7689999999999986516----8779996998430742-----78999998865097789993144


No 463
>KOG2655 consensus
Probab=91.91  E-value=0.26  Score=28.60  Aligned_cols=22  Identities=36%  Similarity=0.557  Sum_probs=18.9

Q ss_pred             CEEEEEECCCCCHHHHHHHHHC
Q ss_conf             2486752888788899998740
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTR   24 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~   24 (367)
                      +.+=++|-...|||||+|.|-.
T Consensus        22 ftlmvvG~sGlGKsTfiNsLf~   43 (366)
T KOG2655          22 FTLMVVGESGLGKSTFINSLFL   43 (366)
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
T ss_conf             3899855887638899988886


No 464
>TIGR03522 GldA_ABC_ATP gliding motility-associated ABC transporter ATP-binding subunit GldA. Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldA is an ABC transporter ATP-binding protein (pfam00005) linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockouts of GldA abolish the gliding phenotype. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility.
Probab=91.91  E-value=0.17  Score=29.90  Aligned_cols=32  Identities=38%  Similarity=0.543  Sum_probs=25.4

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             86752888788899998740489873666867448833799768
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      +||+|.-.+||||+++.++|.-            .|..|.+.+-
T Consensus        31 ~gllGpNGAGKTTl~~~l~Gl~------------~p~~G~i~i~   62 (301)
T TIGR03522        31 VGFLGPNGAGKSTTMKIITGYL------------PPDSGSVQVC   62 (301)
T ss_pred             EEEECCCCCCHHHHHHHHHCCC------------CCCCCEEEEC
T ss_conf             9999999981999999996795------------6897779992


No 465
>PRK01184 hypothetical protein; Provisional
Probab=91.88  E-value=0.14  Score=30.42  Aligned_cols=22  Identities=18%  Similarity=0.321  Sum_probs=18.8

Q ss_pred             CEEEEEECCCCCHHHHHHHHHC
Q ss_conf             2486752888788899998740
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTR   24 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~   24 (367)
                      |-|||+|.|.+||||+-+-+-.
T Consensus         2 ~iIGlTG~iGSGKstva~i~~e   23 (183)
T PRK01184          2 MIIIVTGMPGSGKGEFSKIARE   23 (183)
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
T ss_conf             3999968998878999999997


No 466
>PRK11288 araG L-arabinose transporter ATP-binding protein; Provisional
Probab=91.87  E-value=0.15  Score=30.17  Aligned_cols=20  Identities=35%  Similarity=0.594  Sum_probs=9.2

Q ss_pred             EEEEECCCCCHHHHHHHHHC
Q ss_conf             86752888788899998740
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTR   24 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~   24 (367)
                      +||+|...+|||||+.+++|
T Consensus       282 vgivG~nGsGKSTL~k~L~G  301 (501)
T PRK11288        282 VGFFGLVGAGRSELMKLLYG  301 (501)
T ss_pred             EEEECCCCCCHHHHHHHHCC
T ss_conf             99756888648799998438


No 467
>PRK13642 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=91.85  E-value=0.17  Score=29.84  Aligned_cols=92  Identities=12%  Similarity=0.151  Sum_probs=45.4

Q ss_pred             HHCCHHHHHHHHHHHHHHHCCCHHEECCCH--HHHCCCHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHCC---------
Q ss_conf             313267776210235764101001003430--111010134678778864369840332100246655288---------
Q gi|254780226|r  184 ESLDSDAIPIFKSLNLLTAKPILYICNVSE--HDCKKGNIYTEAVQRLASQQNAEMIIISAAIEAEISQLP---------  252 (367)
Q Consensus       184 ~~~~~de~~~l~~~~llt~KP~iivaNk~e--~~~~~~n~~~e~i~~l~~~~~~~~i~isa~~E~ei~~l~---------  252 (367)
                      .+++--+...+.=..-+..+|-++++---=  .|........+.+.++..+.+..++.++-.++.... .+         
T Consensus       139 ~~LSGGqrQRvaIA~aLa~~P~ililDEPTs~LD~~~~~~i~~ll~~L~~~~~~Tii~iTHdl~~~~~-aDrv~vm~~G~  217 (277)
T PRK13642        139 ARLSGGQKQRVAVAGIIALRPEIIILDESTSMLDPTGRSEIMRVIHEIKDKYHLTVLSITHDLDEAAS-SDRILVMRAGE  217 (277)
T ss_pred             HHCCHHHHHHHHHHHHHHCCCCEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCEEEEEEECHHHHHH-CCEEEEEECCE
T ss_conf             22899999999999999669999999588765898999999999999998169899999458899971-99899998999


Q ss_pred             ------CHHH---HHHHHHCCCCCCCHHHHHHH
Q ss_conf             ------4267---78877538874228999999
Q gi|254780226|r  253 ------EEER---ALFMEELDISISGLELLIRS  276 (367)
Q Consensus       253 ------~ee~---~e~l~~~~l~~tgl~~li~~  276 (367)
                            .+|-   .+.+...++..+-+-++.+.
T Consensus       218 Iv~~G~~~evf~~p~~l~~~~l~~P~~~~l~~~  250 (277)
T PRK13642        218 IIKEAAPSELFATSEDMVEIGLDVPFSSNLMKD  250 (277)
T ss_pred             EEEECCHHHHHCCHHHHHHCCCCCCHHHHHHHH
T ss_conf             999768999876967798779999879999999


No 468
>PRK08118 topology modulation protein; Reviewed
Probab=91.82  E-value=0.15  Score=30.18  Aligned_cols=81  Identities=25%  Similarity=0.345  Sum_probs=47.5

Q ss_pred             CCCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCC---EEEEECCCHHHHHH-HHHCCCCEEEEEEEEEEECCC
Q ss_conf             98248675288878889999874048987366686744883---37997685558777-642186502335799985122
Q gi|254780226|r    1 MGFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPN---SGEVAVPDPRMHKL-AEIAESKDLVPTRMSFVDIAG   76 (367)
Q Consensus         1 m~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn---~g~~~v~d~~~~~l-~~~~~~~~~~p~~i~~iDvaG   76 (367)
                      |. ||-|||-|.+|||||=.+|..     .-+.|...+|.-   .|-..+|+..+... .++....+      -++|   
T Consensus         1 M~-rI~IiG~~GsGKSTlAr~L~~-----~~~ip~~~LD~l~w~~~w~~~~~~e~~~~~~~~~~~~~------WIid---   65 (167)
T PRK08118          1 MK-KIILIGSGGSGKSTLARQLGE-----KLNIPVHHLDALFWKPNWEGVPKEEQRTVQNELVKEDE------WIID---   65 (167)
T ss_pred             CC-EEEEECCCCCCHHHHHHHHHH-----HHCCCEEECCCEEECCCCCCCCHHHHHHHHHHHHHCCC------EEEE---
T ss_conf             96-799988999879999999999-----88969796443476689946888999999999983898------7994---


Q ss_pred             CCCCCCCCCCCHHHHHHHHHCCCEEEEE
Q ss_conf             3543222466328999987303747885
Q gi|254780226|r   77 LVRGASKGEGLGNQFLAHIREVDAIIHV  104 (367)
Q Consensus        77 Lv~gA~~G~GlGN~FL~~ir~aDalihV  104 (367)
                         |.+.     .-+=--+..||.||.+
T Consensus        66 ---Gny~-----~~~~~r~~~aD~iI~L   85 (167)
T PRK08118         66 ---GNYG-----GTMDIRLNAADTIIFL   85 (167)
T ss_pred             ---CCCH-----HHHHHHHHHCCEEEEE
T ss_conf             ---7717-----7998779769999998


No 469
>COG0411 LivG ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]
Probab=91.81  E-value=0.035  Score=34.46  Aligned_cols=31  Identities=45%  Similarity=0.707  Sum_probs=24.4

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEEC
Q ss_conf             8675288878889999874048987366686744883379976
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAV   47 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v   47 (367)
                      .||||--.+||||+||.+||.-            .|..|.+..
T Consensus        33 ~~LIGPNGAGKTTlfNlitG~~------------~P~~G~v~~   63 (250)
T COG0411          33 VGLIGPNGAGKTTLFNLITGFY------------KPSSGTVIF   63 (250)
T ss_pred             EEEECCCCCCCEEEEEEECCCC------------CCCCCEEEE
T ss_conf             9998899888245665323640------------588736998


No 470
>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]
Probab=91.81  E-value=0.24  Score=28.86  Aligned_cols=161  Identities=20%  Similarity=0.273  Sum_probs=77.1

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      ..||||-..+||||+-.++.|...            |..|.+.+..            +...+             ..  
T Consensus        35 ~lgivGeSGsGKSTL~r~l~Gl~~------------p~~G~I~~~G------------~~~~~-------------~~--   75 (252)
T COG1124          35 TLGIVGESGSGKSTLARLLAGLEK------------PSSGSILLDG------------KPLAP-------------KK--   75 (252)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCC------------CCCCEEEECC------------CCCCC-------------CC--
T ss_conf             899984898988899999956567------------8886289888------------40576-------------65--


Q ss_pred             CCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Q ss_conf             46632899998730374788501234542113457767321578898888764332224577777875203204677789
Q gi|254780226|r   84 GEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLLQ  163 (367)
Q Consensus        84 G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~~  163 (367)
                         ....|..       .+++|  |.|     ++++.+|..-++.+-.|-..-  ..+.+.+.+.               
T Consensus        76 ---~~~~~~~-------~VQmV--FQD-----p~~SLnP~~tv~~~l~Epl~~--~~~~~~~~~i---------------  121 (252)
T COG1124          76 ---RAKAFYR-------PVQMV--FQD-----PYSSLNPRRTVGRILSEPLRP--HGLSKSQQRI---------------  121 (252)
T ss_pred             ---CCHHHCC-------CEEEE--ECC-----CCCCCCCCHHHHHHHHHHHCC--CCCCHHHHHH---------------
T ss_conf             ---3033304-------50699--518-----722468410198997424303--7753789999---------------


Q ss_pred             HHHHHHHHHH--HCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCC--C---HHHHHHHHHHHHHCCCC
Q ss_conf             9999889988--758741034431326777621023576410100100343011101--0---13467877886436984
Q gi|254780226|r  164 SIISSSLRLI--EEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKK--G---NIYTEAVQRLASQQNAE  236 (367)
Q Consensus       164 ~~l~~~~~~L--e~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~--~---n~~~e~i~~l~~~~~~~  236 (367)
                         ...++.+  .+...-| .+.+++--++-.+.=.+=+..+|-++++-  | +.+.  .   ......+.++...++..
T Consensus       122 ---~~~L~~VgL~~~~l~R-~P~eLSGGQ~QRiaIARAL~~~PklLIlD--E-ptSaLD~siQa~IlnlL~~l~~~~~lt  194 (252)
T COG1124         122 ---AELLDQVGLPPSFLDR-RPHELSGGQRQRIAIARALIPEPKLLILD--E-PTSALDVSVQAQILNLLLELKKERGLT  194 (252)
T ss_pred             ---HHHHHHCCCCHHHHHC-CCHHCCHHHHHHHHHHHHHCCCCCEEEEC--C-CHHHHCHHHHHHHHHHHHHHHHHCCCE
T ss_conf             ---9999984999899853-94212816899999999863688879953--8-234415889999999999999861945


Q ss_pred             CCCCCCHH
Q ss_conf             03321002
Q gi|254780226|r  237 MIIISAAI  244 (367)
Q Consensus       237 ~i~isa~~  244 (367)
                      ++.+|=.+
T Consensus       195 ~l~IsHdl  202 (252)
T COG1124         195 YLFISHDL  202 (252)
T ss_pred             EEEEECCH
T ss_conf             99996729


No 471
>cd03114 ArgK-like The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.
Probab=91.79  E-value=0.12  Score=30.89  Aligned_cols=20  Identities=55%  Similarity=0.878  Sum_probs=18.8

Q ss_pred             EEEEECCCCCHHHHHHHHHC
Q ss_conf             86752888788899998740
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTR   24 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~   24 (367)
                      |||-|-|.+|||||.+++..
T Consensus         2 iGitG~pGaGKStLi~~l~~   21 (148)
T cd03114           2 IGITGVPGAGKSTLIDALIT   21 (148)
T ss_pred             EEECCCCCCCHHHHHHHHHH
T ss_conf             76258997878999999999


No 472
>PRK10982 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional
Probab=91.77  E-value=0.17  Score=29.91  Aligned_cols=21  Identities=24%  Similarity=0.403  Sum_probs=13.1

Q ss_pred             EEEEECCCCCHHHHHHHHHCC
Q ss_conf             867528887888999987404
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRT   25 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~   25 (367)
                      +||+|...+|||||+++++|.
T Consensus       277 vgl~G~nGsGKsTL~~~l~Gl  297 (491)
T PRK10982        277 LGIAGLVGAKRTDIVETLFGI  297 (491)
T ss_pred             EEEECCCCCCHHHHHHHHHCC
T ss_conf             997789999788999998198


No 473
>PRK09270 frcK putative fructose transport system kinase; Reviewed
Probab=91.73  E-value=0.14  Score=30.33  Aligned_cols=22  Identities=45%  Similarity=0.560  Sum_probs=19.4

Q ss_pred             CEEEEEECCCCCHHHHHHHHHC
Q ss_conf             2486752888788899998740
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTR   24 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~   24 (367)
                      +-|||.|-|.||||||=.++..
T Consensus        35 ~lIgIaG~pGSGKSTlA~~l~~   56 (230)
T PRK09270         35 TVVGIAGPPGAGKSTLAETLWE   56 (230)
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
T ss_conf             8999989998899999999999


No 474
>PRK10744 phosphate transporter subunit; Provisional
Probab=91.60  E-value=0.14  Score=30.41  Aligned_cols=22  Identities=32%  Similarity=0.522  Sum_probs=20.1

Q ss_pred             EEEEEECCCCCHHHHHHHHHCC
Q ss_conf             4867528887888999987404
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRT   25 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~   25 (367)
                      .+||+|...+||||+++.++++
T Consensus        38 ~~~liG~nGaGKSTLlk~i~gl   59 (257)
T PRK10744         38 VTAFIGPSGCGKSTLLRTFNKM   59 (257)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
T ss_conf             9999999998199999999876


No 475
>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]
Probab=91.57  E-value=0.19  Score=29.56  Aligned_cols=34  Identities=35%  Similarity=0.519  Sum_probs=27.7

Q ss_pred             CCCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCC
Q ss_conf             982486752888788899998740489873666867448
Q gi|254780226|r    1 MGFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIE   39 (367)
Q Consensus         1 m~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~   39 (367)
                      |.++|=|||+|.+||||+=.++.+     .-||||--+|
T Consensus         1 ~~~~IvLiG~mGaGKSTIGr~LAk-----~L~~~F~D~D   34 (172)
T COG0703           1 RNMNIVLIGFMGAGKSTIGRALAK-----ALNLPFIDTD   34 (172)
T ss_pred             CCCCEEEECCCCCCHHHHHHHHHH-----HCCCCCCCCH
T ss_conf             996189971799977689999999-----8199802246


No 476
>pfam05783 DLIC Dynein light intermediate chain (DLIC). This family consists of several eukaryotic dynein light intermediate chain proteins. The light intermediate chains (LICs) of cytoplasmic dynein consist of multiple isoforms, which undergo post-translational modification to produce a large number of species. DLIC1 is known to be involved in assembly, organisation, and function of centrosomes and mitotic spindles when bound to pericentrin. DLIC2 is a subunit of cytoplasmic dynein 2 that may play a role in maintaining Golgi organisation by binding cytoplasmic dynein 2 to its Golgi-associated cargo.
Probab=91.55  E-value=1.1  Score=24.28  Aligned_cols=43  Identities=23%  Similarity=0.408  Sum_probs=28.0

Q ss_pred             CCCHHEECCCHHH--HCCCHHHHH--------HHHHHHHHCCCCCCCCCCHHH
Q ss_conf             0100100343011--101013467--------877886436984033210024
Q gi|254780226|r  203 KPILYICNVSEHD--CKKGNIYTE--------AVQRLASQQNAEMIIISAAIE  245 (367)
Q Consensus       203 KP~iivaNk~e~~--~~~~n~~~e--------~i~~l~~~~~~~~i~isa~~E  245 (367)
                      -|+++||.|+|.=  +.+..-|.+        -+.+++.++++.++..|++-+
T Consensus       216 iPIvVV~tKsD~me~LEKe~dy~dEhFDfIqq~LR~fCLqyGAALiYTSvKe~  268 (490)
T pfam05783       216 IPVVVVCTKCDAMSVLEKEHDYRDEHFDFIQSHIRRFCLQYGAALIYTSVKEE  268 (490)
T ss_pred             CCEEEEEECCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHCCCEEEEEECCCC
T ss_conf             87799994641888876512620677899999999999861965788523545


No 477
>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]
Probab=91.48  E-value=0.33  Score=27.92  Aligned_cols=33  Identities=36%  Similarity=0.590  Sum_probs=25.9

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             486752888788899998740489873666867448833799768
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      -+||+|-=.+|||||+.++-|.            +.|..|.+.+-
T Consensus        32 ~~~iiGPNGaGKSTLlK~iLGl------------l~p~~G~i~~~   64 (254)
T COG1121          32 ITALIGPNGAGKSTLLKAILGL------------LKPSSGEIKIF   64 (254)
T ss_pred             EEEEECCCCCCHHHHHHHHHCC------------CCCCCCEEEEC
T ss_conf             8999999888889999999678------------76774269983


No 478
>KOG0091 consensus
Probab=91.47  E-value=0.51  Score=26.63  Aligned_cols=81  Identities=25%  Similarity=0.361  Sum_probs=56.2

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337997685558777642186502335799985122354322
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      ++.=++|-.-||||+++.--|+..-+++.       ||.+|+-.     +.++-++..+.|   +++|+-|.||-     
T Consensus         9 frlivigdstvgkssll~~ft~gkfaels-------dptvgvdf-----farlie~~pg~r---iklqlwdtagq-----   68 (213)
T KOG0091           9 FRLIVIGDSTVGKSSLLRYFTEGKFAELS-------DPTVGVDF-----FARLIELRPGYR---IKLQLWDTAGQ-----   68 (213)
T ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCC-------CCCCCHHH-----HHHHHHCCCCCE---EEEEEEECCCH-----
T ss_conf             99999837752488899998337665567-------98533678-----989873478867---89987302056-----


Q ss_pred             CCCCCHHHHHH----HHHCCCEEEEEECCCC
Q ss_conf             24663289999----8730374788501234
Q gi|254780226|r   83 KGEGLGNQFLA----HIREVDAIIHVLRCFK  109 (367)
Q Consensus        83 ~G~GlGN~FL~----~ir~aDalihVVdaf~  109 (367)
                            .+|-+    --||.=..+.|-|.+.
T Consensus        69 ------erfrsitksyyrnsvgvllvyditn   93 (213)
T KOG0091          69 ------ERFRSITKSYYRNSVGVLLVYDITN   93 (213)
T ss_pred             ------HHHHHHHHHHHHCCCCEEEEEECCC
T ss_conf             ------8888878998654641699996354


No 479
>TIGR03269 met_CoM_red_A2 methyl coenzyme M reductase system, component A2. The enzyme that catalyzes the final step in methanogenesis, methyl coenzyme M reductase, contains alpha, beta, and gamma chains. In older literature, the complex of alpha, beta, and gamma chains was termed component C, while this single chain protein was termed methyl coenzyme M reductase system component A2.
Probab=91.45  E-value=0.21  Score=29.23  Aligned_cols=22  Identities=36%  Similarity=0.555  Sum_probs=20.0

Q ss_pred             EEEEEECCCCCHHHHHHHHHCC
Q ss_conf             4867528887888999987404
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRT   25 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~   25 (367)
                      -+||+|...+|||||.++++|.
T Consensus        28 i~~LvG~sGsGKSTL~~~l~Gl   49 (520)
T TIGR03269        28 VLGILGRSGAGKSVLMHVLRGM   49 (520)
T ss_pred             EEEEECCCCCHHHHHHHHHHCC
T ss_conf             9999999996999999999651


No 480
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=91.44  E-value=0.2  Score=29.39  Aligned_cols=82  Identities=21%  Similarity=0.279  Sum_probs=44.2

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCC---CCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCC
Q ss_conf             2486752888788899998740489873666867448---8337997685558777642186502335799985122354
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIE---PNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVR   79 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~---pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~   79 (367)
                      |+|=|+|-|.+||||+=..|+. .      ||++-|+   ...+....+.+--.....             ++|-..|||
T Consensus         1 ~riiilG~pGaGK~T~A~~La~-~------~~i~hlstgd~~r~~~~~~t~lg~~~k~-------------~i~~g~lv~   60 (178)
T COG0563           1 MRILILGPPGAGKSTLAKKLAK-K------LGLPHLDTGDILRAAIAERTELGEEIKK-------------YIDKGELVP   60 (178)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH-H------CCCCEECCCCCCCHHHCCCCHHHHHHHH-------------HHHCCCCCC
T ss_conf             9799989999988999999999-7------6997855220111100323689999999-------------987589504


Q ss_pred             CCCCCCCCHHHHHHHHHCCCEE-EEEECCC
Q ss_conf             3222466328999987303747-8850123
Q gi|254780226|r   80 GASKGEGLGNQFLAHIREVDAI-IHVLRCF  108 (367)
Q Consensus        80 gA~~G~GlGN~FL~~ir~aDal-ihVVdaf  108 (367)
                      +..-    ..-+-.-+.++|+- ..+.|.|
T Consensus        61 d~i~----~~~v~~rl~~~d~~~~~I~dg~   86 (178)
T COG0563          61 DEIV----NGLVKERLDEADCKAGFILDGF   86 (178)
T ss_pred             HHHH----HHHHHHHHHHCCCCCEEEEECC
T ss_conf             1769----9799999975065772999899


No 481
>TIGR02324 CP_lyasePhnL phosphonate C-P lyase system protein PhnL; InterPro: IPR012701    Members of this family are the PhnL protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three-component ABC transporter, where IPR005769 from INTERPRO is the permease, IPR005770 from INTERPRO is the phosphonates binding protein, and IPR012693 from INTERPRO is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated C-P lyase complex. This protein (PhnL) and the adjacent-encoded PhnK (IPR012700 from INTERPRO) resemble transporter ATP-binding proteins but are suggested, based on mutagenesis studies, to be part of this C-P lyase complex rather than part of a transporter per se ..
Probab=91.43  E-value=0.17  Score=29.85  Aligned_cols=31  Identities=45%  Similarity=0.717  Sum_probs=23.9

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEEC
Q ss_conf             8675288878889999874048987366686744883379976
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAV   47 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v   47 (367)
                      ++|.|...+|||||+.+|=       +||     -|.-|.+.|
T Consensus        37 v~L~G~SGaGKSTlLk~lY-------aNY-----lp~~G~i~~   67 (224)
T TIGR02324        37 VALSGPSGAGKSTLLKSLY-------ANY-----LPDSGRILV   67 (224)
T ss_pred             EEEECCCCCCHHHHHHHHH-------HCC-----CCCCCEEEE
T ss_conf             8853688876789999766-------304-----746867777


No 482
>KOG0092 consensus
Probab=91.42  E-value=0.79  Score=25.35  Aligned_cols=83  Identities=28%  Similarity=0.327  Sum_probs=51.0

Q ss_pred             CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf             24867528887888999987404898736668674488337997685558777642186502335799985122354322
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS   82 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~   82 (367)
                      .|+=|+|-.+||||+|--..-.   ..-.    -.++|.+|.+..-.      .-+.+..   -+++++-|.||.=.-.+
T Consensus         6 ~KvvLLG~~~VGKSSlV~Rfvk---~~F~----e~~e~TIGaaF~tk------tv~~~~~---~ikfeIWDTAGQERy~s   69 (200)
T KOG0092           6 FKVVLLGDSGVGKSSLVLRFVK---DQFH----ENIEPTIGAAFLTK------TVTVDDN---TIKFEIWDTAGQERYHS   69 (200)
T ss_pred             EEEEEECCCCCCCHHHHHHHHH---CCCC----CCCCCCCCEEEEEE------EEEECCC---EEEEEEEECCCCCCCCC
T ss_conf             7999986787770241122232---7566----32345400078999------9984895---78999987677300335


Q ss_pred             CCCCCHHHHHHHHHCCCEEEEEECCC
Q ss_conf             24663289999873037478850123
Q gi|254780226|r   83 KGEGLGNQFLAHIREVDAIIHVLRCF  108 (367)
Q Consensus        83 ~G~GlGN~FL~~ir~aDalihVVdaf  108 (367)
                          |..=   --|+|+|.|.|-|+.
T Consensus        70 ----lapM---YyRgA~AAivvYDit   88 (200)
T KOG0092          70 ----LAPM---YYRGANAAIVVYDIT   88 (200)
T ss_pred             ----CCCC---EECCCCEEEEEEECC
T ss_conf             ----5610---104776799998556


No 483
>cd03271 ABC_UvrA_II The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion.  Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins.  Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins and UvrB having one ATP binding site that is structurally related to that of helicases.
Probab=91.40  E-value=0.16  Score=30.09  Aligned_cols=20  Identities=30%  Similarity=0.426  Sum_probs=17.3

Q ss_pred             EEEEEECCCCCHHHHHHHHH
Q ss_conf             48675288878889999874
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALT   23 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT   23 (367)
                      .++|||...+|||||+|++-
T Consensus        23 ~~aIiG~sGsGKSTLl~~~L   42 (261)
T cd03271          23 LTCVTGVSGSGKSSLINDTL   42 (261)
T ss_pred             EEEEECCCCCCHHHHHHHHH
T ss_conf             99998799986999999998


No 484
>PRK10762 D-ribose transporter ATP binding protein; Provisional
Probab=91.40  E-value=0.2  Score=29.41  Aligned_cols=22  Identities=36%  Similarity=0.502  Sum_probs=20.2

Q ss_pred             EEEEEECCCCCHHHHHHHHHCC
Q ss_conf             4867528887888999987404
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRT   25 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~   25 (367)
                      .+||+|...+||||++++++|.
T Consensus        32 i~~liG~nGaGKSTL~~~l~G~   53 (501)
T PRK10762         32 VMALVGENGAGKSTLMKVLTGI   53 (501)
T ss_pred             EEEEECCCCCHHHHHHHHHHCC
T ss_conf             9999899998299999999579


No 485
>PRK11607 potG putrescine transporter ATP-binding subunit; Provisional
Probab=91.39  E-value=0.18  Score=29.70  Aligned_cols=33  Identities=27%  Similarity=0.568  Sum_probs=26.3

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             867528887888999987404898736668674488337997685
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      ++|+|-..+||||+++.++|..            .|..|.+.+-.
T Consensus        48 ~~llGpsGsGKSTllr~i~Gl~------------~p~~G~I~i~G   80 (377)
T PRK11607         48 FALLGASGCGKSTLLRMLAGFE------------QPSAGQIMLDG   80 (377)
T ss_pred             EEEECCCCCHHHHHHHHHHCCC------------CCCCEEEEECC
T ss_conf             9999999848999999997699------------99865999999


No 486
>PRK10762 D-ribose transporter ATP binding protein; Provisional
Probab=91.38  E-value=0.16  Score=29.97  Aligned_cols=20  Identities=30%  Similarity=0.557  Sum_probs=10.0

Q ss_pred             EEEEECCCCCHHHHHHHHHC
Q ss_conf             86752888788899998740
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTR   24 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~   24 (367)
                      +||+|...+|||||+++++|
T Consensus       281 ~gi~G~nGsGKsTL~~~l~G  300 (501)
T PRK10762        281 LGVSGLMGAGRTELMKVLYG  300 (501)
T ss_pred             EEEECCCCCCHHHHHHHHHC
T ss_conf             99667888768899999818


No 487
>KOG0066 consensus
Probab=91.38  E-value=0.21  Score=29.21  Aligned_cols=36  Identities=25%  Similarity=0.515  Sum_probs=25.0

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             486752888788899998740489873666867448833799768
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      +-||||--.-||+|++.-+.        +..| .|-||+-+..|.
T Consensus       292 RYGLVGPNG~GKTTLLkHIa--------~Ral-aIPpnIDvLlCE  327 (807)
T KOG0066         292 RYGLVGPNGMGKTTLLKHIA--------ARAL-AIPPNIDVLLCE  327 (807)
T ss_pred             EECCCCCCCCCHHHHHHHHH--------HHHC-CCCCCCCEEEEE
T ss_conf             30006789876377999987--------5211-689987368651


No 488
>PRK13537 lipooligosaccharide transporter ATP-binding subunit; Provisional
Probab=91.34  E-value=0.21  Score=29.28  Aligned_cols=32  Identities=25%  Similarity=0.538  Sum_probs=25.5

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             86752888788899998740489873666867448833799768
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      .||+|.-.+||||+++.++|..            .|..|.+.+-
T Consensus        34 ~gllGpNGAGKTTli~~l~Gl~------------~p~sG~v~i~   65 (304)
T PRK13537         34 FGLLGPNGAGKTTTLKMLLGLT------------HPDAGTISLC   65 (304)
T ss_pred             EEEECCCCCCHHHHHHHHHCCC------------CCCCCEEEEC
T ss_conf             9999998972999999997795------------6897689999


No 489
>PRK13647 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=91.34  E-value=0.2  Score=29.38  Aligned_cols=34  Identities=35%  Similarity=0.424  Sum_probs=26.6

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             4867528887888999987404898736668674488337997685
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      .+||+|--.+||||+++.++|.-            .|..|.+.+-.
T Consensus        33 ~~aiiG~NGsGKSTLl~~l~Gl~------------~p~~G~I~i~G   66 (273)
T PRK13647         33 KTAILGPNGAGKSTLLLHLNGIY------------TAQRGRVKVMG   66 (273)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCC------------CCCCEEEEECC
T ss_conf             99999999975999999996698------------88861999999


No 490
>PRK11144 modC molybdate transporter ATP-binding protein; Provisional
Probab=91.22  E-value=0.21  Score=29.20  Aligned_cols=33  Identities=24%  Similarity=0.533  Sum_probs=25.5

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             867528887888999987404898736668674488337997685
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      +||+|...+||||+++++.|...            |..|.+.+-+
T Consensus        27 ~~l~GpsGaGKTTLl~~iaGl~~------------p~~G~I~~~g   59 (352)
T PRK11144         27 TAIFGRSGAGKTSLINLISGLTR------------PQKGRIVLNG   59 (352)
T ss_pred             EEEECCCCCHHHHHHHHHHCCCC------------CCCEEEEECC
T ss_conf             99999999629999999976899------------9965999999


No 491
>COG3840 ThiQ ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]
Probab=91.21  E-value=0.23  Score=29.02  Aligned_cols=33  Identities=36%  Similarity=0.580  Sum_probs=25.3

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             486752888788899998740489873666867448833799768
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      .+.|+|-..+|||||+|.+.|-.            .|..|.+.+-
T Consensus        27 ~vAi~GpSGaGKSTLLnLIAGF~------------~P~~G~i~i~   59 (231)
T COG3840          27 IVAILGPSGAGKSTLLNLIAGFE------------TPASGEILIN   59 (231)
T ss_pred             EEEEECCCCCCHHHHHHHHHHCC------------CCCCCEEEEC
T ss_conf             79997788865788999987424------------7787458985


No 492
>PRK03839 putative kinase; Provisional
Probab=91.03  E-value=0.2  Score=29.40  Aligned_cols=22  Identities=36%  Similarity=0.567  Sum_probs=19.4

Q ss_pred             CEEEEEECCCCCHHHHHHHHHC
Q ss_conf             2486752888788899998740
Q gi|254780226|r    3 FKCGIIGLPNVGKSTLFNALTR   24 (367)
Q Consensus         3 ~kiGlvG~pn~GKST~f~alT~   24 (367)
                      |.|+|.|-|.+||||+=+.|..
T Consensus         1 M~I~ITGTPGtGKTTva~~La~   22 (180)
T PRK03839          1 MIIAITGTPGVGKTTISKLLAE   22 (180)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
T ss_conf             9899978999998999999999


No 493
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=91.02  E-value=0.49  Score=26.75  Aligned_cols=39  Identities=5%  Similarity=0.064  Sum_probs=14.9

Q ss_pred             ECCCCCCHHHHHHCCCCHHCCCCEEEEECCHHHHHHCCC
Q ss_conf             127867677851100121034836999736888774499
Q gi|254780226|r  298 TIPRGTNAQKAAGVIHTDFEKGFIRALTISYKDYVAMGG  336 (367)
Q Consensus       298 ~i~~GstA~d~A~~IHtDi~kgFi~A~v~~~~~~~~~~~  336 (367)
                      +++-++...|+.-.++.==.-|.=+.+--+-+.-..+|+
T Consensus       325 Vlsat~~~~dl~~i~~~f~~~~~~~lI~TKlDEt~~~G~  363 (412)
T PRK05703        325 VLSATTKYRDLKDIVKHFSRLPLDGLILTKLDETSSLGS  363 (412)
T ss_pred             EECCCCCHHHHHHHHHHHCCCCCCEEEEEEECCCCCCCH
T ss_conf             975989989999999984679998799971128998629


No 494
>PRK09473 oppD oligopeptide transporter ATP-binding component; Provisional
Probab=90.99  E-value=0.18  Score=29.76  Aligned_cols=178  Identities=18%  Similarity=0.243  Sum_probs=78.4

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCC
Q ss_conf             48675288878889999874048987366686744883379976855587776421865023357999851223543222
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGASK   83 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~~   83 (367)
                      -+||||...+||||+.+++.+.-..   +.+ +     .|.+.+.            +          .|+-++      
T Consensus        44 ilgivGeSGsGKSTl~~~i~gll~~---~~~-~-----sG~I~~~------------G----------~~i~~~------   86 (330)
T PRK09473         44 TLGIVGESGSGKSQTAFALMGLLAA---NGR-I-----GGSATFN------------G----------REILNL------   86 (330)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCCCC---CCC-E-----EEEEEEC------------C----------EECCCC------
T ss_conf             9999868987799999999768888---883-3-----5899999------------9----------986658------


Q ss_pred             CCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Q ss_conf             46632899998730374788501234542113457767321578898888764332224577777875203204677789
Q gi|254780226|r   84 GEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLLQ  163 (367)
Q Consensus        84 G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~~  163 (367)
                          ..+-+..+|.-+  |.+|  |.|     +..+.||..-+...-.|.....     +.+.+....        ....
T Consensus        87 ----~~~~~~~~r~~~--I~~v--fQd-----p~~sLnP~~~i~~~l~e~l~~~-----~~~~~~~~~--------~~~~  140 (330)
T PRK09473         87 ----PEKELNKLRAEQ--ISMI--FQD-----PMTSLNPYMRVGEQLMEVLMLH-----KGMSKAEAF--------EESV  140 (330)
T ss_pred             ----CHHHHHHHHCCC--EEEE--EEC-----CCHHCCCCCCHHHHHHHHHHHH-----CCCCHHHHH--------HHHH
T ss_conf             ----999999863066--7999--607-----5011384104566555789885-----389989999--------9999


Q ss_pred             HHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCC--HHHHCCCHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf             9999889988758741034431326777621023576410100100343--01110101346787788643698403321
Q gi|254780226|r  164 SIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVS--EHDCKKGNIYTEAVQRLASQQNAEMIIIS  241 (367)
Q Consensus       164 ~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~--e~~~~~~n~~~e~i~~l~~~~~~~~i~is  241 (367)
                      .++.. ...-+....+..++.+++--+...+.=.+-+..+|-++++---  -.|........+.+.++..+.+..++++|
T Consensus       141 ~lL~~-v~l~~~~~~l~~yP~eLSGGq~QRV~IArAL~~~P~lLI~DEPTsaLDv~~q~~Il~ll~~l~~e~g~til~IT  219 (330)
T PRK09473        141 RMLDA-VKMPEARKRMKMYPHEFSGGMRQRVMIAMALLCRPKLLIADEPTTALDVTVQAQIMTLLNELKREFNTAIIMIT  219 (330)
T ss_pred             HHHHH-HHCCHHHHHHHCCHHHCCHHHHHHHHHHHHHHCCCCEEEECCCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEC
T ss_conf             88887-60721788873481533988999999999997099999973875547999999999999999997499479982


Q ss_pred             CHHH
Q ss_conf             0024
Q gi|254780226|r  242 AAIE  245 (367)
Q Consensus       242 a~~E  245 (367)
                      =.+.
T Consensus       220 HDl~  223 (330)
T PRK09473        220 HDLG  223 (330)
T ss_pred             CCHH
T ss_conf             8899


No 495
>PRK10070 glycine betaine transporter ATP-binding subunit; Provisional
Probab=90.91  E-value=0.23  Score=28.94  Aligned_cols=32  Identities=41%  Similarity=0.634  Sum_probs=26.0

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             86752888788899998740489873666867448833799768
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVP   48 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~   48 (367)
                      ++|+|...+||||+.+.+.++.            +|..|.+.+.
T Consensus        57 ~~ivG~SGsGKSTLlr~i~gL~------------~Pt~G~I~i~   88 (400)
T PRK10070         57 FVIMGLSGSGKSTMVRLLNRLI------------EPTRGQVLID   88 (400)
T ss_pred             EEEECCCCCHHHHHHHHHHCCC------------CCCCCEEEEC
T ss_conf             9999999846999999997599------------9898189999


No 496
>PRK09452 potA putrescine/spermidine ABC transporter ATPase protein; Reviewed
Probab=90.85  E-value=0.23  Score=28.96  Aligned_cols=33  Identities=21%  Similarity=0.481  Sum_probs=26.3

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             867528887888999987404898736668674488337997685
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      ++|+|-..+||||+++.+.|..            .|..|.+.+-.
T Consensus        46 ~~llGpSGsGKSTLlr~iaGl~------------~p~sG~I~~~G   78 (378)
T PRK09452         46 LTLLGPSGCGKTTVLRLIAGFE------------TPDSGRIMLDG   78 (378)
T ss_pred             EEEECCCCCHHHHHHHHHHCCC------------CCCCEEEEECC
T ss_conf             9999899976999999997699------------99846999999


No 497
>PRK13649 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=90.85  E-value=0.24  Score=28.84  Aligned_cols=34  Identities=35%  Similarity=0.495  Sum_probs=26.6

Q ss_pred             EEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             4867528887888999987404898736668674488337997685
Q gi|254780226|r    4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD   49 (367)
Q Consensus         4 kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d   49 (367)
                      .+||+|-..+|||||++.+.|.-            .|..|.+.+.+
T Consensus        35 ~~aiiG~nGsGKSTLl~~l~Gl~------------~p~~G~i~~~g   68 (280)
T PRK13649         35 YTAFIGHTGSGKSTIMQLLNGLH------------VPTTGIVSVDD   68 (280)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCC------------CCCCEEEEECC
T ss_conf             99999599986999999996699------------98860899999


No 498
>KOG1707 consensus
Probab=90.85  E-value=1.3  Score=23.83  Aligned_cols=88  Identities=24%  Similarity=0.283  Sum_probs=0.0

Q ss_pred             CCEEEEEECCCCCHHHHHHHHH--CCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCC
Q ss_conf             8248675288878889999874--04898736668674488337997685558777642186502335799985122354
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALT--RTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVR   79 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT--~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~   79 (367)
                      .++|-|+|-..||||++-.+|+  .-.++----.|-.||-+++-.-+||                    +.++|..    
T Consensus         9 dVRIvliGD~G~GKtSLImSL~~eef~~~VP~rl~~i~IPadvtPe~vp--------------------t~ivD~s----   64 (625)
T KOG1707           9 DVRIVLIGDEGVGKTSLIMSLLEEEFVDAVPRRLPRILIPADVTPENVP--------------------TSIVDTS----   64 (625)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCC--------------------EEEEECC----
T ss_conf             2599997788866899999987633545345557761158756767672--------------------1887436----


Q ss_pred             CCCCCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCC
Q ss_conf             3222466328999987303747885012345421134
Q gi|254780226|r   80 GASKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHV  116 (367)
Q Consensus        80 gA~~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~  116 (367)
                      -+++.+   ++.-..||+||+++.|-.+...+.+.++
T Consensus        65 s~~~~~---~~l~~EirkA~vi~lvyavd~~~T~D~i   98 (625)
T KOG1707          65 SDSDDR---LCLRKEIRKADVICLVYAVDDESTVDRI   98 (625)
T ss_pred             CCCCHH---HHHHHHHHHCCEEEEEEECCCHHHHHHH
T ss_conf             664256---8899998645889999853876876544


No 499
>PRK13536 nodulation factor exporter subunit NodI; Provisional
Probab=90.78  E-value=0.25  Score=28.67  Aligned_cols=28  Identities=29%  Similarity=0.447  Sum_probs=0.0

Q ss_pred             EEEEECCCCCHHHHHHHHHCCCCCCCCC
Q ss_conf             8675288878889999874048987366
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTRTASAQAAN   32 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~~~~~~~~~   32 (367)
                      +||+|.-.+||||+++.++|...+..+.
T Consensus        36 ~gllGpNGAGKSTli~~l~Gl~~p~sG~   63 (306)
T PRK13536         36 FGLLGPNGAGKSTIARMILGMTSPDAGK   63 (306)
T ss_pred             EEEECCCCCCHHHHHHHHHCCCCCCCCE
T ss_conf             9999998980999999996795789877


No 500
>PRK13549 xylose transporter ATP-binding subunit; Provisional
Probab=90.78  E-value=0.19  Score=29.49  Aligned_cols=20  Identities=35%  Similarity=0.518  Sum_probs=0.0

Q ss_pred             EEEEECCCCCHHHHHHHHHC
Q ss_conf             86752888788899998740
Q gi|254780226|r    5 CGIIGLPNVGKSTLFNALTR   24 (367)
Q Consensus         5 iGlvG~pn~GKST~f~alT~   24 (367)
                      +||+|...+||||++++++|
T Consensus        34 ~~lvG~nGsGKSTL~~~l~G   53 (513)
T PRK13549         34 VSLCGENGAGKSTLMKVLSG   53 (513)
T ss_pred             EEEECCCCCHHHHHHHHHHC
T ss_conf             99989999729999999956


Done!