Query 020780
Match_columns 321
No_of_seqs 177 out of 1262
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 05:05:58 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020780.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020780hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0004 AmtB Ammonia permease 100.0 7.5E-83 1.6E-87 619.0 24.5 285 21-320 1-286 (409)
2 KOG0682 Ammonia permease [Inor 100.0 8.2E-82 1.8E-86 618.8 23.6 296 9-320 16-317 (500)
3 PRK10666 ammonium transporter; 100.0 3.3E-80 7.1E-85 611.4 23.2 283 20-320 26-309 (428)
4 TIGR00836 amt ammonium transpo 100.0 1.1E-77 2.4E-82 590.9 24.0 280 26-320 1-285 (403)
5 TIGR03644 marine_trans_1 proba 100.0 2.6E-77 5.7E-82 587.8 25.5 285 23-320 2-299 (404)
6 PF00909 Ammonium_transp: Ammo 100.0 6.7E-69 1.5E-73 529.5 11.0 272 27-320 1-280 (399)
7 KOG3796 Ammonium transporter R 100.0 8.5E-32 1.8E-36 256.2 9.9 186 128-320 113-304 (442)
8 PF00909 Ammonium_transp: Ammo 85.4 42 0.00091 33.5 17.6 144 19-219 183-329 (399)
9 TIGR00836 amt ammonium transpo 84.7 36 0.00078 34.3 14.9 141 21-218 191-333 (403)
10 PF01891 CbiM: Cobalt uptake s 81.4 15 0.00034 33.0 9.9 88 196-306 61-148 (205)
11 TIGR03644 marine_trans_1 proba 73.3 1.1E+02 0.0023 30.9 16.4 139 20-216 199-344 (404)
12 PRK08319 cobalt transport prot 56.9 1.5E+02 0.0032 27.3 10.7 29 185-219 56-84 (224)
13 PRK10666 ammonium transporter; 46.8 3.3E+02 0.0072 27.7 13.8 139 21-217 215-356 (428)
14 PF12270 Cyt_c_ox_IV: Cytochro 40.2 1E+02 0.0022 26.6 6.3 28 193-220 34-63 (137)
15 PF06738 DUF1212: Protein of u 34.6 91 0.002 27.3 5.4 70 227-307 99-170 (193)
16 PRK07331 cobalt transport prot 31.2 5E+02 0.011 25.4 10.3 46 158-219 37-82 (322)
17 PF11023 DUF2614: Protein of u 27.4 1.5E+02 0.0032 24.8 5.0 43 39-81 18-63 (114)
18 PRK06265 cobalt transport prot 26.0 4.8E+02 0.01 23.3 11.5 41 265-306 102-142 (199)
19 COG2271 UhpC Sugar phosphate p 23.4 2.2E+02 0.0048 29.2 6.4 117 147-289 82-210 (448)
20 COG4280 Predicted membrane pro 23.2 97 0.0021 28.6 3.5 31 211-246 50-80 (236)
21 TIGR00123 cbiM cobalamin biosy 23.1 3E+02 0.0064 25.2 6.8 29 185-219 56-84 (214)
22 PRK11909 cobalt transport prot 21.8 6.4E+02 0.014 23.3 9.6 29 185-219 54-82 (230)
No 1
>COG0004 AmtB Ammonia permease [Inorganic ion transport and metabolism]
Probab=100.00 E-value=7.5e-83 Score=618.97 Aligned_cols=285 Identities=37% Similarity=0.679 Sum_probs=264.4
Q ss_pred cccchHHHHHHHHHHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHHHHHHHhhhheeeeecCCCCCCCCCCCcchh
Q 020780 21 LNKGDSAWQMTASTLVGIQSMPGLLIIYASIVKKKWAVNSAFMVLYAFAAVLICWVLVCYRMAFGDQLLPFWGKGAPALG 100 (321)
Q Consensus 21 ~~~~d~~w~l~~~~lV~~~m~~GfalleaG~vr~kn~~~~l~~~~~~~~v~~i~~~~~Gy~lafG~~~~~fiG~~~~~~~ 100 (321)
+|+.|+.|+|+|+.|| ++|||||+|+|+|++|+||++|+++||++++++++++|+++||+++||++.++|+|+...+
T Consensus 1 ~~~~d~~wml~sa~LV-~lMtpGlalfy~Gl~R~Kn~ln~~m~~~~~~~i~~~~w~~~Gyslafg~~~~~~iG~~~~~-- 77 (409)
T COG0004 1 MDSGDTAWMLLSAALV-LLMTPGLALFYGGLVRKKNVLNTLMQSFVAFAIVTLLWIFVGYSLAFGPDGNGFIGNLDQF-- 77 (409)
T ss_pred CCcccHHHHHHHHHHH-HHHhhHHHHHHhhHhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhheecCCCCcccCCHHHH--
Confidence 4789999999999999 9999999999999999999999999999999999999999999999998668999997542
Q ss_pred hhhhccCCCCCCCccccCCccccCCcccchhHHHHHHHHHHHHHHHHHHHHhhcCcchhHHHHHHHHHHHhhhhccccce
Q 020780 101 QKYLVGRARVPESTHEVDGKTVTTEPFYAMATLVYFQFTFAAITVILLAGSVLGRMNIRAWMAFVPLWLMFSYTVGAFSL 180 (321)
Q Consensus 101 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~p~~~~~lfq~~Fa~~a~~I~sGavaeR~~~~~~~i~~~l~~~~vYp~~ahwv 180 (321)
++.+.. . ++ + +...++|++++++||++||++|++|++|+++||+|+++|++|+++|.+++|||++||+
T Consensus 78 --~~~~~~-~-~~----~----~~~~~ip~~~f~~FQ~~FAait~alisGa~AER~kf~a~lvf~~lw~~~vY~p~ahWv 145 (409)
T COG0004 78 --FLNGLG-F-AA----V----AGGAGIPELVFFAFQMMFAAITPALISGAVAERMKFSAYLLFSVLWSTLVYPPVAHWV 145 (409)
T ss_pred --hccCcc-c-cc----c----CCcccchHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHhhhhheeE
Confidence 111110 0 00 0 0113589999999999999999999999999999999999999999999999999999
Q ss_pred e-cchhhhccCceeecCceeehhhhhHHHHHHHHHHcCCCCCCCCCCCCCcHHHHHHHHHHHHHhhhhhcCccccccccc
Q 020780 181 W-GGGFLYQWGVIDYSGGYVIHVSSGIAGLTAAYWVGPRLKSDKERFPPNNVLLMLAGAGLLWMGWSGFNGGAPYAAHIA 259 (321)
Q Consensus 181 W-~~GwL~~lG~~DfaGs~vVH~~gG~~gL~~a~~lgpR~~~~~~~~~~~n~~~~~lGt~lLw~gW~gFN~gs~~~~~~~ 259 (321)
| ++|||.++|++|||||+|||+.+|+.||++++++|||+++.+++++|||++++++|+.+||+||||||+||++..+.+
T Consensus 146 Wggggwl~~~g~~DFAGgtVVHi~aG~aaLa~a~~lG~R~g~~~~~~~pHNl~~~~lGa~lLWfGWfGFN~GSal~~~~~ 225 (409)
T COG0004 146 WGGGGWLALLGALDFAGGTVVHINAGFAALAAALVLGKRIGGKPVAIPPHNLPLVVLGAALLWFGWFGFNAGSALAANGV 225 (409)
T ss_pred ecCchHHHhcCceecCCCceEEechhHHHHHHHHHeecccCCCCCCCCCCchhHHHHHHHHHHHHHccCCccchhhhhhh
Confidence 9 677999999999999999999999999999999999999888899999999999999999999999999999999999
Q ss_pred hhHHHHHhHHHHHHHHHHHHHHHHHHhCCCcHHHhHHHhhhccccccCCCCCcccchheee
Q 020780 260 SSIAILNTNVAAATSLLVWTCLDVIFFGKPSVIGAVQGMMTGLVCITPGAGMHQRRVSIFM 320 (321)
Q Consensus 260 ~~~a~~NT~la~a~g~lt~~~~~~~~~~k~~~~~~~nG~laGlVaita~~~~v~p~~A~ii 320 (321)
+..+++||++|+++++++|++++++++||+|+..++||++||||+|||+|++|+||+|++|
T Consensus 226 a~~a~~nT~lAaa~g~l~w~~~e~~~~~Kp~~lg~~sG~vAGLVaITpaag~V~p~~A~ii 286 (409)
T COG0004 226 AALAFVNTNLAAAAGALGWMLIEWLRNGKPSLLGAASGAVAGLVAITPAAGFVSPWGALII 286 (409)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHcCCCchhhhhhHHHhHHHhcCCcccccCcHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999999876
No 2
>KOG0682 consensus Ammonia permease [Inorganic ion transport and metabolism]
Probab=100.00 E-value=8.2e-82 Score=618.76 Aligned_cols=296 Identities=34% Similarity=0.559 Sum_probs=272.1
Q ss_pred cccCCCCCcccccccchHHHHHHHHHHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHHHHHHHhhhheeeeecCC-
Q 020780 9 AYQQELPAVPDWLNKGDSAWQMTASTLVGIQSMPGLLIIYASIVKKKWAVNSAFMVLYAFAAVLICWVLVCYRMAFGDQ- 87 (321)
Q Consensus 9 ~~~~~~~~~~~~~~~~d~~w~l~~~~lV~~~m~~GfalleaG~vr~kn~~~~l~~~~~~~~v~~i~~~~~Gy~lafG~~- 87 (321)
+.+.+.++.|..+|..|+.|++.++++| |+|||||+|||+|+||+||++|+|+||++|.+++.++||++||+|+||++
T Consensus 16 ~~~~~~~~~~~~y~~dn~~~l~sss~lv-F~M~~Gfg~L~sG~vr~Kna~nim~~nvld~a~g~l~y~~~GyslAFg~~~ 94 (500)
T KOG0682|consen 16 GGNVLTKFTPNAYDLDNTAWLLSSSFLV-FTMQPGFGLLYSGLVRAKNAVNIMLKNVLDVAVGGLQYYLFGYSLAFGDSP 94 (500)
T ss_pred ccccccccCcchhcCCchhhHHHHHHHH-HHhcccHHHhhhccchhhhHHHHHHHHHHHHHHHHHHHHHhhheeeccCCC
Confidence 3444677888899999999999999999 99999999999999999999999999999999999999999999999987
Q ss_pred CCCCCCCCCcchhhhhhccCCCCCCCccccCCccccCCcccchhHHHHHHHHHHHHHHHHHHHHhhcCcchhHHHHHHHH
Q 020780 88 LLPFWGKGAPALGQKYLVGRARVPESTHEVDGKTVTTEPFYAMATLVYFQFTFAAITVILLAGSVLGRMNIRAWMAFVPL 167 (321)
Q Consensus 88 ~~~fiG~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~p~~~~~lfq~~Fa~~a~~I~sGavaeR~~~~~~~i~~~l 167 (321)
.|+|||+.+++ +.+.+.++. ++ +..+|++.+++||++||+++++|++|+++||+|+++|++|+++
T Consensus 95 ~n~FiG~~~~F-~~~~~~g~~-------------~~-~~~~p~~~~f~FQ~~FA~~a~~i~sGa~AER~~l~~~~v~~~~ 159 (500)
T KOG0682|consen 95 SNGFIGKLDFF-GLRNVSGDP-------------SS-GSTIPDYSFFLFQGMFAATAATIVSGAVAERGRLKPYMVFSFF 159 (500)
T ss_pred CCCceeecccc-ccccCCCCc-------------CC-ccchhhHHHHHHHHHHHHHHHHHhhhHHHhhhcchhHHHHHHH
Confidence 79999998752 222111111 11 1128999999999999999999999999999999999999999
Q ss_pred HHHhhhhcccccee-cchhhhccCceeecCceeehhhhhHHHHHHHHHHcCCCCCC---CCCCCCCcHHHHHHHHHHHHH
Q 020780 168 WLMFSYTVGAFSLW-GGGFLYQWGVIDYSGGYVIHVSSGIAGLTAAYWVGPRLKSD---KERFPPNNVLLMLAGAGLLWM 243 (321)
Q Consensus 168 ~~~~vYp~~ahwvW-~~GwL~~lG~~DfaGs~vVH~~gG~~gL~~a~~lgpR~~~~---~~~~~~~n~~~~~lGt~lLw~ 243 (321)
|.++||||++||+| ++||++++|++|||||++||++||..||++++++|||++|+ .++++|||++++++|+++||+
T Consensus 160 ~~tlVY~~~a~W~W~~~Gw~~~~gviDfAG~g~VHl~gG~agl~~a~~lGpR~~r~~~~~~~~~~hsv~~v~LGt~lLWf 239 (500)
T KOG0682|consen 160 LTTLVYCPVAHWVWSPNGWLYKLGVIDFAGGGVVHLVGGVAGLVAALILGPRIGRFFGKAIALRPHSVTLVVLGTFLLWF 239 (500)
T ss_pred HHHhcccccceeeecCCceeeecceeeccCCceeEecccHHHHHHHHHhCCccCcccccccccCCCchhHHHHHHHHHHH
Confidence 99999999999999 89999999999999999999999999999999999999973 357899999999999999999
Q ss_pred hhhhhcCccccccccchh-HHHHHhHHHHHHHHHHHHHHHHHHhCCCcHHHhHHHhhhccccccCCCCCcccchheee
Q 020780 244 GWSGFNGGAPYAAHIASS-IAILNTNVAAATSLLVWTCLDVIFFGKPSVIGAVQGMMTGLVCITPGAGMHQRRVSIFM 320 (321)
Q Consensus 244 gW~gFN~gs~~~~~~~~~-~a~~NT~la~a~g~lt~~~~~~~~~~k~~~~~~~nG~laGlVaita~~~~v~p~~A~ii 320 (321)
||++||+||.++++.+.. ++++||+||++.|++||.+++|+++||+|+..+|||+|+|||||||+|++++||+|++|
T Consensus 240 GWl~FN~GS~~~i~~~~~~~a~vnT~Ls~a~gglt~~~~d~~~~~kwsv~~~cnG~laGlVaiT~gc~~v~pWaAivi 317 (500)
T KOG0682|consen 240 GWLGFNGGSFYAINLRSWARAAVNTILSGATGGLTWLIIDYLRHGKWSVIGLCNGILAGLVAITPGCGVVEPWAAIVI 317 (500)
T ss_pred HHHccCCcccccccchhHHHHHHHHHHHHhhhhhhhhhhhhhhcCCcchhhhHHHHHHHHHhhcCCCcccCcHHHHHH
Confidence 999999999999888887 99999999999999999999999999999999999999999999999999999999875
No 3
>PRK10666 ammonium transporter; Provisional
Probab=100.00 E-value=3.3e-80 Score=611.35 Aligned_cols=283 Identities=34% Similarity=0.611 Sum_probs=262.4
Q ss_pred ccccchHHHHHHHHHHHHHHHH-HHHHHHHcCCccchhHHHHHHHHHHHHHHHHHHHhhhheeeeecCCCCCCCCCCCcc
Q 020780 20 WLNKGDSAWQMTASTLVGIQSM-PGLLIIYASIVKKKWAVNSAFMVLYAFAAVLICWVLVCYRMAFGDQLLPFWGKGAPA 98 (321)
Q Consensus 20 ~~~~~d~~w~l~~~~lV~~~m~-~GfalleaG~vr~kn~~~~l~~~~~~~~v~~i~~~~~Gy~lafG~~~~~fiG~~~~~ 98 (321)
.+|+.|+.|+++|++|| ++|| |||+|+|+|+||+||++|+++||++++++++++||++||+++||++ ++|+|+.+++
T Consensus 26 ~~~~~d~~w~l~~~~lV-~~M~~~Gfalle~G~vR~KN~~n~~~k~~~~~~~~~l~w~~~Gy~lafg~~-~~~iG~~~~~ 103 (428)
T PRK10666 26 VADKADNAFMMICTALV-LFMTIPGIALFYGGLIRGKNVLSMLTQVTVTFALVCILWVVYGYSLAFGEG-NAFFGNFNWL 103 (428)
T ss_pred ccccccHHHHHHHHHHH-HHHHHhHHHHhhccccchhHHHHHHHHHHHHHHHHHHeeeeeeHHHHhCCC-CCcccChHHh
Confidence 58899999999999999 9998 9999999999999999999999999999999999999999999975 6899976542
Q ss_pred hhhhhhccCCCCCCCccccCCccccCCcccchhHHHHHHHHHHHHHHHHHHHHhhcCcchhHHHHHHHHHHHhhhhcccc
Q 020780 99 LGQKYLVGRARVPESTHEVDGKTVTTEPFYAMATLVYFQFTFAAITVILLAGSVLGRMNIRAWMAFVPLWLMFSYTVGAF 178 (321)
Q Consensus 99 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~p~~~~~lfq~~Fa~~a~~I~sGavaeR~~~~~~~i~~~l~~~~vYp~~ah 178 (321)
+ + +....+ +...++|++.+++||++||+++++|++|+++||+|+++|++|+++|++++|||++|
T Consensus 104 ~----~-~~~~~~-----------~~~~~~~~~~~~~FQ~~Faa~a~tIvsGavaER~~~~~~lif~~~~~~~vY~~vah 167 (428)
T PRK10666 104 M----L-KNIELT-----------AVMGSIYQYIHVAFQGSFACITVGLIVGALAERIRFSAVLIFVVVWLTLSYIPIAH 167 (428)
T ss_pred h----h-cCCCcc-----------cccccchhHHHHHHHHHHHHHHHHHHHhHhhccccHHHHHHHHHHHHHHHHHHhhh
Confidence 1 1 110000 01123678889999999999999999999999999999999999999999999999
Q ss_pred ceecchhhhccCceeecCceeehhhhhHHHHHHHHHHcCCCCCCCCCCCCCcHHHHHHHHHHHHHhhhhhcCcccccccc
Q 020780 179 SLWGGGFLYQWGVIDYSGGYVIHVSSGIAGLTAAYWVGPRLKSDKERFPPNNVLLMLAGAGLLWMGWSGFNGGAPYAAHI 258 (321)
Q Consensus 179 wvW~~GwL~~lG~~DfaGs~vVH~~gG~~gL~~a~~lgpR~~~~~~~~~~~n~~~~~lGt~lLw~gW~gFN~gs~~~~~~ 258 (321)
|+|++|||.++|++|||||++||++||++||++++++|||++|++++++|||++++++|+++||+||+|||+||+...+.
T Consensus 168 WvW~~GwL~~lG~~DfAG~~vVH~~gG~~aL~~a~~lG~R~g~~~~~~~~hn~~~~~lGt~lLw~GW~gFN~Gs~~~~~~ 247 (428)
T PRK10666 168 MVWGGGLLASDGALDFAGGTVVHINAAVAGLVGAYLLGKRVGFGKEAFKPHNLPMVFTGTAILYIGWFGFNAGSAGAANE 247 (428)
T ss_pred heeCchhHhhcchhhhcccchhHHhHHHHHHHHHHHhcccCCCCCCCCCCCCHHHHHHHHHHHHHHHHhccchhhccccc
Confidence 99999999999999999999999999999999999999999988888999999999999999999999999999998888
Q ss_pred chhHHHHHhHHHHHHHHHHHHHHHHHHhCCCcHHHhHHHhhhccccccCCCCCcccchheee
Q 020780 259 ASSIAILNTNVAAATSLLVWTCLDVIFFGKPSVIGAVQGMMTGLVCITPGAGMHQRRVSIFM 320 (321)
Q Consensus 259 ~~~~a~~NT~la~a~g~lt~~~~~~~~~~k~~~~~~~nG~laGlVaita~~~~v~p~~A~ii 320 (321)
++.++++||++|+++|+++|++++++++||+|+.+++||+|||||+|||+|++++||+|++|
T Consensus 248 ~a~~a~~nT~la~a~g~l~~~~~~~~~~gk~~~~~~~nG~LaGLVaITa~a~~v~p~~A~ii 309 (428)
T PRK10666 248 IAALAFVNTVVATAAAILGWVFGEWALRGKPSLLGACSGAIAGLVGVTPACGYVGVGGALII 309 (428)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHhhhhhhcccccccCCHHHHHHH
Confidence 89999999999999999999999999999999999999999999999999999999999876
No 4
>TIGR00836 amt ammonium transporter. The mechanism of energy coupling, if any, to methyl-NH2 or NH3 uptake by the AmtB protein of E. coli is not entirely clear. NH4+ uniport driven by the pmf, energy independent NH3 facilitation, and NH4+/K+ antiport have been proposed as possible transport mechanisms. In Corynebacterium glutamicum and Arabidopsis thaliana, uptake via the Amt1 homologues of AmtB has been reported to be driven by the pmf.
Probab=100.00 E-value=1.1e-77 Score=590.92 Aligned_cols=280 Identities=37% Similarity=0.677 Sum_probs=257.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHHHHHHHhhhheeeeecC--CCCCCCCCCCcchhhhh
Q 020780 26 SAWQMTASTLVGIQSMPGLLIIYASIVKKKWAVNSAFMVLYAFAAVLICWVLVCYRMAFGD--QLLPFWGKGAPALGQKY 103 (321)
Q Consensus 26 ~~w~l~~~~lV~~~m~~GfalleaG~vr~kn~~~~l~~~~~~~~v~~i~~~~~Gy~lafG~--~~~~fiG~~~~~~~~~~ 103 (321)
+.|+++|++|| ++|||||+|+|+|+||+||++|+++||++++++++++||++||+++||+ +.++|+|+.++++.
T Consensus 1 ~~w~l~~~~lV-~~M~~Gfalle~G~vr~kn~~n~l~k~~~~~~~~~i~~~~~Gy~lafg~~~~~~~~iG~~~~~~~--- 76 (403)
T TIGR00836 1 TAWLLIAAALV-FFMQPGFALLYAGLVRSKNVLNIMMKNLLDFAIGSLLWWLFGYSLAFGEDNPINGFIGTGGFGLK--- 76 (403)
T ss_pred ChHHHHHHHHH-HHHHHHHHHHhccccchhHHHHHHHHHHHHHHHHHHhhheehHHHHhCCCCCCCCCcCchHHhhc---
Confidence 57999999999 9999999999999999999999999999999999999999999999998 45789998743321
Q ss_pred hccCCCCCCCccccCCccccCCcccchhHHHHHHHHHHHHHHHHHHHHhhcCcchhHHHHHHHHHHHhhhhcccccee-c
Q 020780 104 LVGRARVPESTHEVDGKTVTTEPFYAMATLVYFQFTFAAITVILLAGSVLGRMNIRAWMAFVPLWLMFSYTVGAFSLW-G 182 (321)
Q Consensus 104 ~~~~~~~~~~~~~~~g~~~~~~~~~p~~~~~lfq~~Fa~~a~~I~sGavaeR~~~~~~~i~~~l~~~~vYp~~ahwvW-~ 182 (321)
+....+. .+..+.+|++.+++||++||+++++|++|+++||+|+++|++|+++|++++|||++||+| +
T Consensus 77 --~~~~~~~---------~~~~~~~~~~~~~~fq~~Fa~~t~~I~sGavaeR~~~~~~~v~~~~~~~~vY~~~ahwvW~~ 145 (403)
T TIGR00836 77 --NFLYPGK---------ISLAGTLPDLLFFLFQMMFAAIAATIISGAVAERMKFSAYLLFSVLWTTLVYPPVAHWVWGG 145 (403)
T ss_pred --cCCcccc---------cccccchHHHHHHHHHHHHHHHHHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhccceeecC
Confidence 1110000 011234788999999999999999999999999999999999999999999999999999 6
Q ss_pred chhhhccCceeecCceeehhhhhHHHHHHHHHHcCCCCCC--CCCCCCCcHHHHHHHHHHHHHhhhhhcCccccccccch
Q 020780 183 GGFLYQWGVIDYSGGYVIHVSSGIAGLTAAYWVGPRLKSD--KERFPPNNVLLMLAGAGLLWMGWSGFNGGAPYAAHIAS 260 (321)
Q Consensus 183 ~GwL~~lG~~DfaGs~vVH~~gG~~gL~~a~~lgpR~~~~--~~~~~~~n~~~~~lGt~lLw~gW~gFN~gs~~~~~~~~ 260 (321)
+|||+++|++|||||++||++||++||+++++||||++|+ +++++|||++++++|+++||+||+|||+||+...++++
T Consensus 146 ~GwL~~lG~~DfAG~~vVH~~gG~~~L~~a~~LGpR~~r~~~~~~~~~~n~~~~~lGt~lLw~gW~gFN~Gs~~~~~~~~ 225 (403)
T TIGR00836 146 GGWLYKLGVLDFAGGGVVHIVGGVAGLAAALVLGPRIGRFPRPVAIRPHNVPLVVLGTFILWFGWFGFNAGSALAANGTA 225 (403)
T ss_pred CchhhccCcchhcCceeEecchhHHHHHHHHHhcCCCCCCcCcCCCCCCCHHHHHHHHHHHHHHHhcccchhhcccchHH
Confidence 9999999999999999999999999999999999999998 67789999999999999999999999999998888899
Q ss_pred hHHHHHhHHHHHHHHHHHHHHHHHHhCCCcHHHhHHHhhhccccccCCCCCcccchheee
Q 020780 261 SIAILNTNVAAATSLLVWTCLDVIFFGKPSVIGAVQGMMTGLVCITPGAGMHQRRVSIFM 320 (321)
Q Consensus 261 ~~a~~NT~la~a~g~lt~~~~~~~~~~k~~~~~~~nG~laGlVaita~~~~v~p~~A~ii 320 (321)
.++++||++|+++|+++|++++++++||+|+.+++||+|||||+|||+|++++||+|++|
T Consensus 226 ~~a~~nT~lA~a~g~l~~~~~~~~~~gk~~~~~~~nG~LAGLVaita~a~~v~p~~A~vi 285 (403)
T TIGR00836 226 AYAAVNTNLAAAAGGLTWLLIDWLKHGKPTLLGACNGILAGLVAITPGCGVVTPWGAIII 285 (403)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHhhhhhhheeecCCCCCCCHHHHHHH
Confidence 999999999999999999999999999999999999999999999999999999999875
No 5
>TIGR03644 marine_trans_1 probable ammonium transporter, marine subtype. Members of this protein family are well conserved subclass of putative ammonimum transporters, belonging to the much broader set of ammonium/methylammonium transporter described by TIGR00836. Species with this transporter tend to be marine bacteria. Partial phylogenetic profiling (PPP) picks a member of this protein family as the single best-scoring protein vs. a reference profile for the marine environment Genome Property for a large number of different query genomes. This finding by PPP suggests that this transporter family represents an important adaptation to the marine environment.
Probab=100.00 E-value=2.6e-77 Score=587.75 Aligned_cols=285 Identities=26% Similarity=0.437 Sum_probs=250.1
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHHHHHHHhhhheeeeecCCC---CCCCCCCCcch
Q 020780 23 KGDSAWQMTASTLVGIQSMPGLLIIYASIVKKKWAVNSAFMVLYAFAAVLICWVLVCYRMAFGDQL---LPFWGKGAPAL 99 (321)
Q Consensus 23 ~~d~~w~l~~~~lV~~~m~~GfalleaG~vr~kn~~~~l~~~~~~~~v~~i~~~~~Gy~lafG~~~---~~fiG~~~~~~ 99 (321)
..|+.|+++|++|| |+|||||+|+|+|++|+||++|+++||++++++++++||++||+++||++. ++++|.. ..
T Consensus 2 ~~d~~w~l~~~~LV-~~M~~Gfalle~G~vr~Kn~~n~l~k~~~~~~~~~l~w~~~Gy~lafg~~~~~~~g~~g~f--~~ 78 (404)
T TIGR03644 2 ALDTFYFLISGALV-MWMAAGFAMLEAGLVRSKNTTEILTKNIALFAIACIMYLLVGYNIMYPGGGIFLGGILGSF--LL 78 (404)
T ss_pred cccHHHHHHHHHHH-HHHHHHHHHHhccccchHHHHHHHHHHHHHHHHHHHHhhhhhhhhhcCCCCcccCCcchhh--hh
Confidence 36999999999999 999999999999999999999999999999999999999999999999762 2334321 10
Q ss_pred hhhhhccCCCCCCCccccCCccccCCcccchhHHHHHHHHHHHHHHHHHHHHhhcCcchhHHHHHHHHHHHhhhhccccc
Q 020780 100 GQKYLVGRARVPESTHEVDGKTVTTEPFYAMATLVYFQFTFAAITVILLAGSVLGRMNIRAWMAFVPLWLMFSYTVGAFS 179 (321)
Q Consensus 100 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~p~~~~~lfq~~Fa~~a~~I~sGavaeR~~~~~~~i~~~l~~~~vYp~~ahw 179 (321)
...+...+. .+. ...+.++|...+++||++||+++++|++|+++||+|+++|++|+++|++++|||++||
T Consensus 79 ------~~~~~~~~~--~~~--~~~~~~~~~~~~~~Fq~~Fa~~a~~IvsGavaeR~~~~~~~v~~~~~~~~vY~~~ahW 148 (404)
T TIGR03644 79 ------GADNPVGDL--IAG--FEGDADYSSGSDFFFQVVFVATAMSIVSGAVAERMKLWPFLLFAVVLTGFIYPIEGSW 148 (404)
T ss_pred ------ccccccccc--ccc--cccccCccHHHHHHHHHHHHHHHHHHHHhHhhhcccHHHHHHHHHHHHHHHHhhhhhh
Confidence 000000000 000 0012346778889999999999999999999999999999999999999999999999
Q ss_pred eecchhhhccCceeecCceeehhhhhHHHHHHHHHHcCCCCCCC-----CCCCCCcHHHHHHHHHHHHHhhhhhcCcccc
Q 020780 180 LWGGGFLYQWGVIDYSGGYVIHVSSGIAGLTAAYWVGPRLKSDK-----ERFPPNNVLLMLAGAGLLWMGWSGFNGGAPY 254 (321)
Q Consensus 180 vW~~GwL~~lG~~DfaGs~vVH~~gG~~gL~~a~~lgpR~~~~~-----~~~~~~n~~~~~lGt~lLw~gW~gFN~gs~~ 254 (321)
+|++|||+++|++|||||++||++||++||+++++||||++|++ +++||||++++++|+++||+||+|||+||++
T Consensus 149 ~W~~GwL~~lG~~DfAG~~vVH~~gG~~aL~~a~~LgpR~gr~~~~~~~~~~~~~n~~~~~lG~~iLw~gW~gFN~gs~l 228 (404)
T TIGR03644 149 TWGGGWLDDLGFSDFAGSGIVHMAGAAAALAGVLLLGPRKGKYGKNGEVNPIPGSNLPLATLGTFILWMGWFGFNGGSQL 228 (404)
T ss_pred eeCchHHhhcCchhhcCceEEecchHHHHHHHHheeccCCCCCccCCCcCCCCCCCHHHHHHHHHHHHHHHHhhcchhhh
Confidence 99889999999999999999999999999999999999999763 2578999999999999999999999999987
Q ss_pred cccc-----chhHHHHHhHHHHHHHHHHHHHHHHHHhCCCcHHHhHHHhhhccccccCCCCCcccchheee
Q 020780 255 AAHI-----ASSIAILNTNVAAATSLLVWTCLDVIFFGKPSVIGAVQGMMTGLVCITPGAGMHQRRVSIFM 320 (321)
Q Consensus 255 ~~~~-----~~~~a~~NT~la~a~g~lt~~~~~~~~~~k~~~~~~~nG~laGlVaita~~~~v~p~~A~ii 320 (321)
..+. +..++++||++|+++|+++|++++++++||+|+.+++||+|||||+|||+|++++||+|++|
T Consensus 229 ~~~~~~~~~~~~~a~~NT~la~a~g~l~~~~~~~~~~gk~~~~~~~nG~LAGLVaITa~~~~v~p~~A~ii 299 (404)
T TIGR03644 229 ALSDVADANAVARIFANTNAAAAGGAIAALLLTKLLFGKADLTMVLNGALAGLVAITAEPLTPSPLAATLI 299 (404)
T ss_pred hcccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHhhhhhhccccCCCCHHHHHHH
Confidence 7653 35889999999999999999999999999999999999999999999999999999999876
No 6
>PF00909 Ammonium_transp: Ammonium Transporter Family; InterPro: IPR024041 This ammonium transporter domain consists of a duplication of 2 structural repeats of five helices each plus one extra C-terminal helix. It has been described as a channel that spans the membrane 11 times [].; PDB: 3B9Z_A 3B9Y_A 3B9W_A 3BHS_A 2B2H_A 2B2J_A 2B2F_A 2B2I_A 2NPG_A 2NUU_E ....
Probab=100.00 E-value=6.7e-69 Score=529.45 Aligned_cols=272 Identities=33% Similarity=0.571 Sum_probs=241.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHHHHHHHhhhheeeeecCC--CCCCCCCCCcchhhhhh
Q 020780 27 AWQMTASTLVGIQSMPGLLIIYASIVKKKWAVNSAFMVLYAFAAVLICWVLVCYRMAFGDQ--LLPFWGKGAPALGQKYL 104 (321)
Q Consensus 27 ~w~l~~~~lV~~~m~~GfalleaG~vr~kn~~~~l~~~~~~~~v~~i~~~~~Gy~lafG~~--~~~fiG~~~~~~~~~~~ 104 (321)
+|+++|+.+| ++||+||+++|+|.+|+||++|+++||++|+++++++||++||+++||++ .++++|+..+...
T Consensus 1 ~w~l~~~~lv-~~m~~G~~~l~~G~vr~kn~~~~~~~~~~~~~~~~~~~~~~Gf~lafg~~~~~~~~~g~~~~~~~---- 75 (399)
T PF00909_consen 1 AWLLLCAFLV-FLMQPGFALLEAGLVRSKNAVNILYKNLIDVAVVVMIWFLFGFSLAFGKRYGFSGFIGNLGFSAF---- 75 (399)
T ss_dssp HHHHHHHHHH-HHHCCHHHHHHHCCS-GGGHHHHHHHHHHHHHHHHHHHHHCHHHHHHSTT-HHHHHHHHHCHHHH----
T ss_pred CHHHHHHHHH-HHhhccHHHhhCCCcCchHHHHHHHHHHHHHHHHHHHHHhhhhheeecCCcccCceeeccccccc----
Confidence 5999999999 99999999999999999999999999999999999999999999999987 4566666322100
Q ss_pred ccCCCCCCCccccCCccccCCcccchhHHHHHHHHHHHHHHHHHHHHhhcCcchhHHHHHHHHHHHhhhhcccccee-cc
Q 020780 105 VGRARVPESTHEVDGKTVTTEPFYAMATLVYFQFTFAAITVILLAGSVLGRMNIRAWMAFVPLWLMFSYTVGAFSLW-GG 183 (321)
Q Consensus 105 ~~~~~~~~~~~~~~g~~~~~~~~~p~~~~~lfq~~Fa~~a~~I~sGavaeR~~~~~~~i~~~l~~~~vYp~~ahwvW-~~ 183 (321)
. .+...+|+..+++||+.||+++++|++|+++||+|+.+|++|+++|+.++||+++||+| ++
T Consensus 76 -~----------------~~~~~~~~~~~~~fq~~fa~~~~~I~sgavaeR~~~~~~ii~~~l~~~~vy~~~~~w~w~~~ 138 (399)
T PF00909_consen 76 -G----------------FQWANIPQGVFFLFQLAFAAIAATIVSGAVAERIKFSAYIIFGFLWGGLVYPPLAHWVWGEN 138 (399)
T ss_dssp -H----------------HHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCTHHHHHHHHHCHC
T ss_pred -c----------------chhccccccchhhhhhccceEEEccccceeeceeeehHHHHHHHHHhhhhccccceEEEecc
Confidence 0 01123667789999999999999999999999999999999999999999999999999 69
Q ss_pred hhhhccCce-eecCceeehhhhhHHHHHHHHHHcCCCCCC---CCCCCCCcHHHHHHHHHHHHHhhhhhcCccccccccc
Q 020780 184 GFLYQWGVI-DYSGGYVIHVSSGIAGLTAAYWVGPRLKSD---KERFPPNNVLLMLAGAGLLWMGWSGFNGGAPYAAHIA 259 (321)
Q Consensus 184 GwL~~lG~~-DfaGs~vVH~~gG~~gL~~a~~lgpR~~~~---~~~~~~~n~~~~~lGt~lLw~gW~gFN~gs~~~~~~~ 259 (321)
|||.++|.+ ||+||++||++||++||++++++|||++|+ ++++++||++++++|+++||+||+|||+||++..+++
T Consensus 139 Gwl~~~g~~~DfaG~~vVH~~gG~~gL~~a~~lg~R~~~~~~~~~~~~~~s~~~~~lG~~lLw~gW~gFN~gs~~~~~~~ 218 (399)
T PF00909_consen 139 GWLAQLGFLIDFAGSGVVHLFGGVFGLAAAIVLGPRRGRFDGKPNPIPPHSPPLAMLGTLLLWFGWFGFNAGSALAANGR 218 (399)
T ss_dssp HHHHHCCHH--TT-TTTTHHHHHHHHHHHHHHH--CTTTTGTTTSS--HCHHHHHHHHHHHHHHHHHHHHHCCGSSSSHH
T ss_pred hhhccCccCCCCccceeeehhhhHHHHhhheeeCCCCCcccccccCCCCCcHHHhhhhHHHHHHHhcccccccccccCCc
Confidence 999999999 999999999999999999999999999986 5778999999999999999999999999999998877
Q ss_pred hhH-HHHHhHHHHHHHHHHHHHHHHHHhCCCcHHHhHHHhhhccccccCCCCCcccchheee
Q 020780 260 SSI-AILNTNVAAATSLLVWTCLDVIFFGKPSVIGAVQGMMTGLVCITPGAGMHQRRVSIFM 320 (321)
Q Consensus 260 ~~~-a~~NT~la~a~g~lt~~~~~~~~~~k~~~~~~~nG~laGlVaita~~~~v~p~~A~ii 320 (321)
+.. +++||++|+++|++++++++++++||+|+.+++||+|||+|||||+|++++||+|++|
T Consensus 219 ~~~~~~~nT~la~a~g~l~~~~~~~~~~gk~~~~~~~nG~laGlVaita~~~~v~p~~A~~i 280 (399)
T PF00909_consen 219 AWLRAAVNTLLAAAAGGLTWLLISYLLSGKWSMVGICNGALAGLVAITAGAGYVTPWGALLI 280 (399)
T ss_dssp HHH-HHHHHHHHHHHHHHHHHHHHHHHCSS--HHHHHHHHHHHHHHHTTTTTTS-HHHHHHH
T ss_pred cchhhhhhhhhhHHHHHHHHHHhhhccccccchhhhhhhhhhhhhheecccCCCcHHHHHHh
Confidence 777 9999999999999999999999999999999999999999999999999999999875
No 7
>KOG3796 consensus Ammonium transporter RHBG [Intracellular trafficking, secretion, and vesicular transport; General function prediction only]
Probab=99.97 E-value=8.5e-32 Score=256.19 Aligned_cols=186 Identities=19% Similarity=0.290 Sum_probs=163.0
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHhhcCcchhHHHHHHHHHHHhhhhccccceecchhhhccCceeecCceeehhhhhHH
Q 020780 128 YAMATLVYFQFTFAAITVILLAGSVLGRMNIRAWMAFVPLWLMFSYTVGAFSLWGGGFLYQWGVIDYSGGYVIHVSSGIA 207 (321)
Q Consensus 128 ~p~~~~~lfq~~Fa~~a~~I~sGavaeR~~~~~~~i~~~l~~~~vYp~~ahwvW~~GwL~~lG~~DfaGs~vVH~~gG~~ 207 (321)
+...++.+..++||+.++.|..||+++|+++.|++++++++.+ ++....|- -++.+++.|.+||+.||.+|+++
T Consensus 113 ~~i~le~ii~Ad~saa~vLIS~gAvLGk~sp~QlliM~~fEv~-~~~~~e~v-----~~n~~~v~d~g~smtih~FgAYF 186 (442)
T KOG3796|consen 113 FVIGLESIILADFSAASVLISMGAVLGKVSPAQLLIMALFEVT-AFGINEMV-----ISNIFNVNDHGGSMTIHAFGAYF 186 (442)
T ss_pred EEEEeHHHhhhhHhHhHHhhhhchhhcCCCHHHHHHHHHHHHH-HHHHHHHH-----HHHhccccccCCceEEEehhhhh
Confidence 4445678999999999999999999999999999999999765 45553332 23568999999999999999999
Q ss_pred HHHHHHHHcCCCCC---CCCCCCCCcHHHHHHHHHHHHHhhhhhcCccccccccchhHHHHHhHHHHHHHHHHHHHHHHH
Q 020780 208 GLTAAYWVGPRLKS---DKERFPPNNVLLMLAGAGLLWMGWSGFNGGAPYAAHIASSIAILNTNVAAATSLLVWTCLDVI 284 (321)
Q Consensus 208 gL~~a~~lgpR~~~---~~~~~~~~n~~~~~lGt~lLw~gW~gFN~gs~~~~~~~~~~a~~NT~la~a~g~lt~~~~~~~ 284 (321)
||+++++++||..| +|+....|++.++++||++||+.||+||+..+.. ++.+.|+++||++|.|++.+|++.++.+
T Consensus 187 GLavA~~l~k~~~~~~~~~~gs~y~sdLfAMIGtlFLWmfWPSFNsal~~~-~~~r~rAi~NTy~slAa~tvTtf~~Ssl 265 (442)
T KOG3796|consen 187 GLAVAWCLYKPNLEGTTENEGSAYHSDLFAMIGTLFLWMFWPSFNSALARS-GDARHRAIFNTYLSLAASTVTTFAVSSL 265 (442)
T ss_pred hhhHhhhccCccccccccccCceecchHHHHHHHHHHHHhccccchhhhcC-chhhHHHHHHHHHHHHHHHHHhhhhhhh
Confidence 99999999988765 3455678999999999999999999999976543 5677999999999999999999999988
Q ss_pred --HhCCCcHHHhHHHhhhccccccCCCCC-cccchheee
Q 020780 285 --FFGKPSVIGAVQGMMTGLVCITPGAGM-HQRRVSIFM 320 (321)
Q Consensus 285 --~~~k~~~~~~~nG~laGlVaita~~~~-v~p~~A~ii 320 (321)
.+||+|+.+++|..|||.||++.+|+. .+||.|++|
T Consensus 266 v~~~gkldMvhIqnatLAGGVAVGTsa~~~l~P~~Amii 304 (442)
T KOG3796|consen 266 VHPQGKLDMVHIQNATLAGGVAVGTSANLILSPYGAMII 304 (442)
T ss_pred hcccCccceEEeecchhcCceeeccchhcccCcHHHHHH
Confidence 578999999999999999999999996 599999986
No 8
>PF00909 Ammonium_transp: Ammonium Transporter Family; InterPro: IPR024041 This ammonium transporter domain consists of a duplication of 2 structural repeats of five helices each plus one extra C-terminal helix. It has been described as a channel that spans the membrane 11 times [].; PDB: 3B9Z_A 3B9Y_A 3B9W_A 3BHS_A 2B2H_A 2B2J_A 2B2F_A 2B2I_A 2NPG_A 2NUU_E ....
Probab=85.36 E-value=42 Score=33.46 Aligned_cols=144 Identities=15% Similarity=0.118 Sum_probs=92.8
Q ss_pred cccccchHHHHHHHHHHHHHHHHHHHHHHHcCCccchhHHH---HHHHHHHHHHHHHHHHhhhheeeeecCCCCCCCCCC
Q 020780 19 DWLNKGDSAWQMTASTLVGIQSMPGLLIIYASIVKKKWAVN---SAFMVLYAFAAVLICWVLVCYRMAFGDQLLPFWGKG 95 (321)
Q Consensus 19 ~~~~~~d~~w~l~~~~lV~~~m~~GfalleaG~vr~kn~~~---~l~~~~~~~~v~~i~~~~~Gy~lafG~~~~~fiG~~ 95 (321)
+....-|..+..+.+.+. ++ |.--|.+|.....|... +++...++.+.+.+.|.++.|-.. |+ .
T Consensus 183 ~~~~~~s~~~~~lG~~lL-w~---gW~gFN~gs~~~~~~~~~~~~~~nT~la~a~g~l~~~~~~~~~~-gk--------~ 249 (399)
T PF00909_consen 183 NPIPPHSPPLAMLGTLLL-WF---GWFGFNAGSALAANGRAWLRAAVNTLLAAAAGGLTWLLISYLLS-GK--------W 249 (399)
T ss_dssp SS--HCHHHHHHHHHHHH-HH---HHHHHHHCCGSSSSHHHHH-HHHHHHHHHHHHHHHHHHHHHHHC-SS---------
T ss_pred cCCCCCcHHHhhhhHHHH-HH---HhcccccccccccCCccchhhhhhhhhhHHHHHHHHHHhhhccc-cc--------c
Confidence 334566778888887666 43 66667778777666554 456678888888999977644222 10 0
Q ss_pred CcchhhhhhccCCCCCCCccccCCccccCCcccchhHHHHHHHHHHHHHHHHHHHHhhcCcchhHHHHHHHHHHHhhhhc
Q 020780 96 APALGQKYLVGRARVPESTHEVDGKTVTTEPFYAMATLVYFQFTFAAITVILLAGSVLGRMNIRAWMAFVPLWLMFSYTV 175 (321)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~p~~~~~lfq~~Fa~~a~~I~sGavaeR~~~~~~~i~~~l~~~~vYp~ 175 (321)
....+.+.. .+-.+.+.+-++-.++.+-++..++ ++.++..
T Consensus 250 -----------------------------------~~~~~~nG~---laGlVaita~~~~v~p~~A~~iG~i-ag~i~~~ 290 (399)
T PF00909_consen 250 -----------------------------------SMVGICNGA---LAGLVAITAGAGYVTPWGALLIGAI-AGLISYF 290 (399)
T ss_dssp ------------------------------------HHHHHHHH---HHHHHHHTTTTTTS-HHHHHHHHHH-HHHHHHH
T ss_pred -----------------------------------chhhhhhhh---hhhhhheecccCCCcHHHHHHhhhh-Hhhhhhh
Confidence 011223333 3333334555677888888888887 5555555
Q ss_pred cccceecchhhhccCceeecCceeehhhhhHHHHHHHHHHcCCC
Q 020780 176 GAFSLWGGGFLYQWGVIDYSGGYVIHVSSGIAGLTAAYWVGPRL 219 (321)
Q Consensus 176 ~ahwvW~~GwL~~lG~~DfaGs~vVH~~gG~~gL~~a~~lgpR~ 219 (321)
..+| ++++++..|-.|.-.||..+|..|...+-+...+.
T Consensus 291 ~~~~-----l~~~~~iDD~~~~~~vHg~~Gi~G~i~~glfa~~~ 329 (399)
T PF00909_consen 291 GVSW-----LLKRLKIDDPVGAFAVHGVGGIWGTILTGLFASPE 329 (399)
T ss_dssp HHHH-----HHHHHTS-HTTGHHHHCHHHHHHHHHHHHHHCCCH
T ss_pred heec-----ccceeEeccccceEeeeeccHHHHHHHHHHHhccc
Confidence 4433 46789999999999999999999999987775543
No 9
>TIGR00836 amt ammonium transporter. The mechanism of energy coupling, if any, to methyl-NH2 or NH3 uptake by the AmtB protein of E. coli is not entirely clear. NH4+ uniport driven by the pmf, energy independent NH3 facilitation, and NH4+/K+ antiport have been proposed as possible transport mechanisms. In Corynebacterium glutamicum and Arabidopsis thaliana, uptake via the Amt1 homologues of AmtB has been reported to be driven by the pmf.
Probab=84.70 E-value=36 Score=34.27 Aligned_cols=141 Identities=13% Similarity=0.065 Sum_probs=85.3
Q ss_pred cccchHHHHHHHHHHHHHHHHHHHHHHHcCCccch--hHHHHHHHHHHHHHHHHHHHhhhheeeeecCCCCCCCCCCCcc
Q 020780 21 LNKGDSAWQMTASTLVGIQSMPGLLIIYASIVKKK--WAVNSAFMVLYAFAAVLICWVLVCYRMAFGDQLLPFWGKGAPA 98 (321)
Q Consensus 21 ~~~~d~~w~l~~~~lV~~~m~~GfalleaG~vr~k--n~~~~l~~~~~~~~v~~i~~~~~Gy~lafG~~~~~fiG~~~~~ 98 (321)
...-|..+.++.+.+. ++ |..-|.+|+.... .+..+++...++.+.+.+.|.++-|-. .|+- +.
T Consensus 191 ~~~~n~~~~~lGt~lL-w~---gW~gFN~Gs~~~~~~~~~~a~~nT~lA~a~g~l~~~~~~~~~-~gk~--------~~- 256 (403)
T TIGR00836 191 IRPHNVPLVVLGTFIL-WF---GWFGFNAGSALAANGTAAYAAVNTNLAAAAGGLTWLLIDWLK-HGKP--------TL- 256 (403)
T ss_pred CCCCCHHHHHHHHHHH-HH---HHhcccchhhcccchHHHHHHHHHHHHHHHHHHHHHHHHHHh-cCCC--------CH-
Confidence 4456778888887666 54 5555677766433 445666777888889999998876532 1210 00
Q ss_pred hhhhhhccCCCCCCCccccCCccccCCcccchhHHHHHHHHHHHHHHHHHHHHhhcCcchhHHHHHHHHHHHhhhhcccc
Q 020780 99 LGQKYLVGRARVPESTHEVDGKTVTTEPFYAMATLVYFQFTFAAITVILLAGSVLGRMNIRAWMAFVPLWLMFSYTVGAF 178 (321)
Q Consensus 99 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~p~~~~~lfq~~Fa~~a~~I~sGavaeR~~~~~~~i~~~l~~~~vYp~~ah 178 (321)
....=.+.+-.....+-++-.++.+-++..++ +++++....+
T Consensus 257 -------------------------------------~~~~nG~LAGLVaita~a~~v~p~~A~viG~i-ag~~~~~~~~ 298 (403)
T TIGR00836 257 -------------------------------------LGACNGILAGLVAITPGCGVVTPWGAIIIGLV-AGVLCYLAVS 298 (403)
T ss_pred -------------------------------------HHHHhhhhhhheeecCCCCCCCHHHHHHHHHH-HHHHHHHHHH
Confidence 00000112222222333355666666666665 3334333222
Q ss_pred ceecchhhhccCceeecCceeehhhhhHHHHHHHHHHcCC
Q 020780 179 SLWGGGFLYQWGVIDYSGGYVIHVSSGIAGLTAAYWVGPR 218 (321)
Q Consensus 179 wvW~~GwL~~lG~~DfaGs~vVH~~gG~~gL~~a~~lgpR 218 (321)
+ ..++++..|--+.-.||..+|..|....-++.++
T Consensus 299 ~-----l~~~~~iDD~~~~~~vHg~~Gi~G~i~~glfa~~ 333 (403)
T TIGR00836 299 K-----LKKKLKIDDPLDAFAVHGVGGIWGLIATGLFAAP 333 (403)
T ss_pred H-----HHHHcCCCCCcccchhhhhhHHHHHHHHHHhccc
Confidence 1 2357899999999999999999999988777653
No 10
>PF01891 CbiM: Cobalt uptake substrate-specific transmembrane region; InterPro: IPR002751 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. This entry represents the integral membrane protein CbiM, which is involved in cobalamin synthesis, although its exact function in unknown.; GO: 0009236 cobalamin biosynthetic process, 0016021 integral to membrane
Probab=81.44 E-value=15 Score=33.02 Aligned_cols=88 Identities=23% Similarity=0.185 Sum_probs=45.9
Q ss_pred CceeehhhhhHHHHHHHHHHcCCCCCCCCCCCCCcHHHHHHHHHHHHHhhhhhcCccccccccchhHHHHHhHHHHHHHH
Q 020780 196 GGYVIHVSSGIAGLTAAYWVGPRLKSDKERFPPNNVLLMLAGAGLLWMGWSGFNGGAPYAAHIASSIAILNTNVAAATSL 275 (321)
Q Consensus 196 Gs~vVH~~gG~~gL~~a~~lgpR~~~~~~~~~~~n~~~~~lGt~lLw~gW~gFN~gs~~~~~~~~~~a~~NT~la~a~g~ 275 (321)
++..+|..|.. ..++++|||. ........+-+...-|..|.- .. -=.|+...+....
T Consensus 61 ~g~s~Hllg~~---l~~l~lGp~~-------------a~~~~~~vll~qal~fg~gg~------~~-lG~N~l~m~~~~~ 117 (205)
T PF01891_consen 61 GGLSVHLLGLT---LLTLMLGPWL-------------AALAMAIVLLLQALLFGDGGW------TA-LGANALNMGVPPV 117 (205)
T ss_pred CCchHHHhHHH---HHHHHHhHHH-------------HHHHHHHHHHHHHHHHhcCcH------HH-HHHHHHHHHHHHH
Confidence 67899998876 4678899774 122233333333333322211 11 1257765555555
Q ss_pred HHHHHHHHHHhCCCcHHHhHHHhhhcccccc
Q 020780 276 LVWTCLDVIFFGKPSVIGAVQGMMTGLVCIT 306 (321)
Q Consensus 276 lt~~~~~~~~~~k~~~~~~~nG~laGlVait 306 (321)
+..+.+.+..+||.......++.++|.+++.
T Consensus 118 ~~~~~~~~~l~~~~~~~~~~~~F~ag~l~~~ 148 (205)
T PF01891_consen 118 LVSYLLFRLLRRKFPRNIFVAGFLAGFLSVL 148 (205)
T ss_pred HHHHHHHHHHhhcccccHHHHHHHHHHHHHH
Confidence 5555555544444333344566666655543
No 11
>TIGR03644 marine_trans_1 probable ammonium transporter, marine subtype. Members of this protein family are well conserved subclass of putative ammonimum transporters, belonging to the much broader set of ammonium/methylammonium transporter described by TIGR00836. Species with this transporter tend to be marine bacteria. Partial phylogenetic profiling (PPP) picks a member of this protein family as the single best-scoring protein vs. a reference profile for the marine environment Genome Property for a large number of different query genomes. This finding by PPP suggests that this transporter family represents an important adaptation to the marine environment.
Probab=73.26 E-value=1.1e+02 Score=30.92 Aligned_cols=139 Identities=12% Similarity=-0.020 Sum_probs=85.4
Q ss_pred ccccchHHHHHHHHHHHHHHHHHHHHHHHcCCc------cc-hhHHHHHHHHHHHHHHHHHHHhhhheeeeecCCCCCCC
Q 020780 20 WLNKGDSAWQMTASTLVGIQSMPGLLIIYASIV------KK-KWAVNSAFMVLYAFAAVLICWVLVCYRMAFGDQLLPFW 92 (321)
Q Consensus 20 ~~~~~d~~w~l~~~~lV~~~m~~GfalleaG~v------r~-kn~~~~l~~~~~~~~v~~i~~~~~Gy~lafG~~~~~fi 92 (321)
.+..-|..+.++-+.+. ++--+|| .+|+. ++ +.+..+.+...++.+.+.+.|.++-|-. +++.
T Consensus 199 ~~~~~n~~~~~lG~~iL-w~gW~gF---N~gs~l~~~~~~~~~~~~~a~~NT~la~a~g~l~~~~~~~~~-~gk~----- 268 (404)
T TIGR03644 199 PIPGSNLPLATLGTFIL-WMGWFGF---NGGSQLALSDVADANAVARIFANTNAAAAGGAIAALLLTKLL-FGKA----- 268 (404)
T ss_pred CCCCCCHHHHHHHHHHH-HHHHHhh---cchhhhhcccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHH-cCCC-----
Confidence 34456777888887776 6554444 45542 22 2344566677888888999998775532 1211
Q ss_pred CCCCcchhhhhhccCCCCCCCccccCCccccCCcccchhHHHHHHHHHHHHHHHHHHHHhhcCcchhHHHHHHHHHHHhh
Q 020780 93 GKGAPALGQKYLVGRARVPESTHEVDGKTVTTEPFYAMATLVYFQFTFAAITVILLAGSVLGRMNIRAWMAFVPLWLMFS 172 (321)
Q Consensus 93 G~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~p~~~~~lfq~~Fa~~a~~I~sGavaeR~~~~~~~i~~~l~~~~v 172 (321)
+ ...+.+. +.+-....-+-++-.++.+-++..++ .+++
T Consensus 269 ---~-----------------------------------~~~~~nG---~LAGLVaITa~~~~v~p~~A~iiG~i-ag~v 306 (404)
T TIGR03644 269 ---D-----------------------------------LTMVLNG---ALAGLVAITAEPLTPSPLAATLIGAV-GGVI 306 (404)
T ss_pred ---C-----------------------------------HHHHHHH---HHhhhhhhccccCCCCHHHHHHHHHH-HHHH
Confidence 0 0011111 12222222233456677777777776 4555
Q ss_pred hhccccceecchhhhccCceeecCceeehhhhhHHHHHHHHHHc
Q 020780 173 YTVGAFSLWGGGFLYQWGVIDYSGGYVIHVSSGIAGLTAAYWVG 216 (321)
Q Consensus 173 Yp~~ahwvW~~GwL~~lG~~DfaGs~vVH~~gG~~gL~~a~~lg 216 (321)
+..... +++++++.|--+.-.||..+|..|...+-+..
T Consensus 307 ~~~~~~------~~~~~~iDD~~~~~~vHg~~Gi~G~i~~glf~ 344 (404)
T TIGR03644 307 VVFSIV------LLDKLKIDDPVGAISVHGVAGIWGTLVVPITN 344 (404)
T ss_pred HHHHHH------HHHhCCCCCCcCchHhhhHHHHHHHHHHHHhc
Confidence 544322 56789999999999999999999998887764
No 12
>PRK08319 cobalt transport protein CbiM; Validated
Probab=56.87 E-value=1.5e+02 Score=27.32 Aligned_cols=29 Identities=17% Similarity=0.118 Sum_probs=21.6
Q ss_pred hhhccCceeecCceeehhhhhHHHHHHHHHHcCCC
Q 020780 185 FLYQWGVIDYSGGYVIHVSSGIAGLTAAYWVGPRL 219 (321)
Q Consensus 185 wL~~lG~~DfaGs~vVH~~gG~~gL~~a~~lgpR~ 219 (321)
|+-+.+. -|+..+|..|+. ..++++|||.
T Consensus 56 ~~i~~pi---~~G~s~Hllg~~---l~~lllGp~~ 84 (224)
T PRK08319 56 SALKIPS---VTGSCSHPTGTG---LGAILFGPAV 84 (224)
T ss_pred HHhcCCC---CCCcchhHhHHH---HHHHHHhHHH
Confidence 6656653 468899999886 5678899984
No 13
>PRK10666 ammonium transporter; Provisional
Probab=46.83 E-value=3.3e+02 Score=27.72 Aligned_cols=139 Identities=16% Similarity=0.113 Sum_probs=80.4
Q ss_pred cccchHHHHHHHHHHHHHHHHHHHHHHHcCCccchh--HHHHHHHHHHHHHHHHHHHhhhheeeeecCCCCCCCCCCCcc
Q 020780 21 LNKGDSAWQMTASTLVGIQSMPGLLIIYASIVKKKW--AVNSAFMVLYAFAAVLICWVLVCYRMAFGDQLLPFWGKGAPA 98 (321)
Q Consensus 21 ~~~~d~~w~l~~~~lV~~~m~~GfalleaG~vr~kn--~~~~l~~~~~~~~v~~i~~~~~Gy~lafG~~~~~fiG~~~~~ 98 (321)
...-|....++-+.+. ++ |..-|.+|+....| +..+.+...++.+.+.+.|.++-|- -.|+. +
T Consensus 215 ~~~hn~~~~~lGt~lL-w~---GW~gFN~Gs~~~~~~~a~~a~~nT~la~a~g~l~~~~~~~~-~~gk~--------~-- 279 (428)
T PRK10666 215 FKPHNLPMVFTGTAIL-YI---GWFGFNAGSAGAANEIAALAFVNTVVATAAAILGWVFGEWA-LRGKP--------S-- 279 (428)
T ss_pred CCCCCHHHHHHHHHHH-HH---HHHhccchhhccccchHHHHHHHHHHHHHHHHHHHHHHHHH-HhCCC--------C--
Confidence 3344556666666555 43 66667888775543 4556666778888888888765432 11110 0
Q ss_pred hhhhhhccCCCCCCCccccCCccccCCcccchhHHHHHHHHHHHHHHHHHHHHhhcCcchhHHHHHHHHHHHhhhhcccc
Q 020780 99 LGQKYLVGRARVPESTHEVDGKTVTTEPFYAMATLVYFQFTFAAITVILLAGSVLGRMNIRAWMAFVPLWLMFSYTVGAF 178 (321)
Q Consensus 99 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~p~~~~~lfq~~Fa~~a~~I~sGavaeR~~~~~~~i~~~l~~~~vYp~~ah 178 (321)
. ..+.+ .+.+-.....+-++=.++..-++..++ .++++....+
T Consensus 280 -----------------------------~----~~~~n---G~LaGLVaITa~a~~v~p~~A~iiG~v-ag~v~~~~~~ 322 (428)
T PRK10666 280 -----------------------------L----LGACS---GAIAGLVGVTPACGYVGVGGALIIGVV-AGLAGLWGVT 322 (428)
T ss_pred -----------------------------H----HHHHH---HHhhhhhhcccccccCCHHHHHHHHHH-HHHHHHHHHH
Confidence 0 00011 111111122233455666666666666 4444433222
Q ss_pred ceecchhhh-ccCceeecCceeehhhhhHHHHHHHHHHcC
Q 020780 179 SLWGGGFLY-QWGVIDYSGGYVIHVSSGIAGLTAAYWVGP 217 (321)
Q Consensus 179 wvW~~GwL~-~lG~~DfaGs~vVH~~gG~~gL~~a~~lgp 217 (321)
++. +++..|--+...||..+|..|....-+...
T Consensus 323 ------~l~~~~~iDD~~~a~~vHgv~Gi~G~l~~glfa~ 356 (428)
T PRK10666 323 ------MLKRWLRVDDPCDVFGVHGVCGIVGCILTGIFAA 356 (428)
T ss_pred ------HHHhcCCCCCCcCccHhhhHhHHHHHHHHHHhhc
Confidence 344 479999999999999999999888877654
No 14
>PF12270 Cyt_c_ox_IV: Cytochrome c oxidase subunit IV; InterPro: IPR021050 This family of proteins is found in bacteria. Proteins in this family are approximately 140 amino acids in length. This family is the fourth subunit of the cytochrome c oxidase complex. This subunit does not have a catalytic capacity but instead, is required for assembly and/or stability of the complex []. ; GO: 0004129 cytochrome-c oxidase activity, 0055114 oxidation-reduction process, 0016021 integral to membrane
Probab=40.20 E-value=1e+02 Score=26.56 Aligned_cols=28 Identities=21% Similarity=0.434 Sum_probs=20.8
Q ss_pred eecCceeehhhhhHHHHHHHHH--HcCCCC
Q 020780 193 DYSGGYVIHVSSGIAGLTAAYW--VGPRLK 220 (321)
Q Consensus 193 DfaGs~vVH~~gG~~gL~~a~~--lgpR~~ 220 (321)
|-+|....-+.++.+.+++.++ ..+|++
T Consensus 34 E~~Gt~aL~ls~~l~~mig~yl~~~~rr~~ 63 (137)
T PF12270_consen 34 EWVGTVALVLSGGLALMIGFYLRFTARRIG 63 (137)
T ss_pred CcchHHHHHHHHHHHHHHHHHHHHHHhhCC
Confidence 8899988888888887777643 356654
No 15
>PF06738 DUF1212: Protein of unknown function (DUF1212); InterPro: IPR010619 This entry represents a predicted domain found within a number of hypothetical proteins of unknown function found in eukaryotes, bacteria and archaea. Some of these sequences are predicted to be membrane proteins.
Probab=34.62 E-value=91 Score=27.34 Aligned_cols=70 Identities=19% Similarity=0.211 Sum_probs=40.4
Q ss_pred CCCcHHHHHHHHHHHHHhhhhhcCccccccccchhHHHHHhHHHHHHHHHHHHHHHHHHhCCCc--HHHhHHHhhhcccc
Q 020780 227 PPNNVLLMLAGAGLLWMGWSGFNGGAPYAAHIASSIAILNTNVAAATSLLVWTCLDVIFFGKPS--VIGAVQGMMTGLVC 304 (321)
Q Consensus 227 ~~~n~~~~~lGt~lLw~gW~gFN~gs~~~~~~~~~~a~~NT~la~a~g~lt~~~~~~~~~~k~~--~~~~~nG~laGlVa 304 (321)
++++..+..++..+.-.+.--+.+|+ .....+|...|.+..++...+.+.+.+ ......+.++++++
T Consensus 99 ~~y~~~~~~l~~~l~~~~fa~lfgg~-----------~~~~~~a~i~g~~~~~~~~~~~r~~~~~~~~~~~aa~~~~~~a 167 (193)
T PF06738_consen 99 PRYPPWLVILAAGLASAAFALLFGGS-----------WIDMIVAFILGLLVGLLRQLLSRRRLNSFIQEFIAAFLASLLA 167 (193)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHCCC-----------HHHHHHHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHH
Confidence 46788888888877766655554444 233455555555555555444444433 44456666666665
Q ss_pred ccC
Q 020780 305 ITP 307 (321)
Q Consensus 305 ita 307 (321)
...
T Consensus 168 ~~~ 170 (193)
T PF06738_consen 168 ALL 170 (193)
T ss_pred HHH
Confidence 543
No 16
>PRK07331 cobalt transport protein CbiM; Provisional
Probab=31.17 E-value=5e+02 Score=25.38 Aligned_cols=46 Identities=20% Similarity=0.315 Sum_probs=27.8
Q ss_pred hhHHHHHHHHHHHhhhhccccceecchhhhccCceeecCceeehhhhhHHHHHHHHHHcCCC
Q 020780 158 IRAWMAFVPLWLMFSYTVGAFSLWGGGFLYQWGVIDYSGGYVIHVSSGIAGLTAAYWVGPRL 219 (321)
Q Consensus 158 ~~~~~i~~~l~~~~vYp~~ahwvW~~GwL~~lG~~DfaGs~vVH~~gG~~gL~~a~~lgpR~ 219 (321)
-++...++.+ +.+++.. |+-+.+. -++..+|..|+. ..++++||+.
T Consensus 37 ~~~~pllg~l-~A~~F~l---------~~in~pi---p~G~s~Hllg~~---L~alllGP~~ 82 (322)
T PRK07331 37 KKKMPLLGIA-AAFSFLI---------MMFNVPL---PGGTTGHAVGGT---LIAILLGPWA 82 (322)
T ss_pred hhhhHHHHHH-HHHHHHH---------HHhcCCC---CCCcchhHHHHH---HHHHHHhHHH
Confidence 3454445544 4545544 5555553 345688998875 5678889874
No 17
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=27.42 E-value=1.5e+02 Score=24.79 Aligned_cols=43 Identities=16% Similarity=0.206 Sum_probs=26.9
Q ss_pred HHHHHHHHHHcCCccchh--HHHH-HHHHHHHHHHHHHHHhhhhee
Q 020780 39 QSMPGLLIIYASIVKKKW--AVNS-AFMVLYAFAAVLICWVLVCYR 81 (321)
Q Consensus 39 ~m~~GfalleaG~vr~kn--~~~~-l~~~~~~~~v~~i~~~~~Gy~ 81 (321)
++..|+...|.|.+=+.+ ...+ ++..++.+..++++|+.+|+-
T Consensus 18 lif~g~~vmy~gi~f~~~~~im~ifmllG~L~~l~S~~VYfwIGml 63 (114)
T PF11023_consen 18 LIFIGMIVMYIGIFFKASPIIMVIFMLLGLLAILASTAVYFWIGML 63 (114)
T ss_pred HHHHHHHHHhhhhhhcccHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 455677777777554422 3332 234567777788888888874
No 18
>PRK06265 cobalt transport protein CbiM; Validated
Probab=26.01 E-value=4.8e+02 Score=23.35 Aligned_cols=41 Identities=15% Similarity=0.182 Sum_probs=23.6
Q ss_pred HHhHHHHHHHHHHHHHHHHHHhCCCcHHHhHHHhhhcccccc
Q 020780 265 LNTNVAAATSLLVWTCLDVIFFGKPSVIGAVQGMMTGLVCIT 306 (321)
Q Consensus 265 ~NT~la~a~g~lt~~~~~~~~~~k~~~~~~~nG~laGlVait 306 (321)
.|+..-+.-+.++++...+..++++ .....++.++|.+++.
T Consensus 102 ~N~l~m~~p~~~~~~~~~~~~~~~~-~~~~~~~f~~~~l~v~ 142 (199)
T PRK06265 102 VNTLNMALPAVLAGYLFRKLLRRTP-PPRGLAAFLAGALAVF 142 (199)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhcc-chHHHHHHHHHHHHHH
Confidence 4554444666666666655544333 2445677777776654
No 19
>COG2271 UhpC Sugar phosphate permease [Carbohydrate transport and metabolism]
Probab=23.39 E-value=2.2e+02 Score=29.19 Aligned_cols=117 Identities=21% Similarity=0.255 Sum_probs=60.8
Q ss_pred HHHHHhhcCcchhHHHHHHHHHHHhhhhcccc--------cee-cchhhhccCceeecCceeehhhhhHHHHHHHHHHcC
Q 020780 147 LLAGSVLGRMNIRAWMAFVPLWLMFSYTVGAF--------SLW-GGGFLYQWGVIDYSGGYVIHVSSGIAGLTAAYWVGP 217 (321)
Q Consensus 147 I~sGavaeR~~~~~~~i~~~l~~~~vYp~~ah--------wvW-~~GwL~~lG~~DfaGs~vVH~~gG~~gL~~a~~lgp 217 (321)
-++|.+++|.|++.++-+.++.++++--.... -.| =|||.+.+|. ...+-....|. +
T Consensus 82 f~~G~~sDr~npr~fm~~gLilsai~nil~Gfs~s~~~~~~l~~lng~fQg~Gw------------pp~~~~i~~Wf--s 147 (448)
T COG2271 82 FVMGVLSDRSNPRYFMAFGLILSAIVNILFGFSPSLFLFAVLWVLNGWFQGMGW------------PPCARTITHWF--S 147 (448)
T ss_pred HHhhhhcccCCCceeehHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhcCCC------------cHHHHHHHHHc--C
Confidence 36777888888888877777777655332110 012 2566555542 22223333333 4
Q ss_pred CCCCCCC---CCCCCcHHHHHHHHHHHHHhhhhhcCccccccccchhHHHHHhHHHHHHHHHHHHHHHHHHhCCC
Q 020780 218 RLKSDKE---RFPPNNVLLMLAGAGLLWMGWSGFNGGAPYAAHIASSIAILNTNVAAATSLLVWTCLDVIFFGKP 289 (321)
Q Consensus 218 R~~~~~~---~~~~~n~~~~~lGt~lLw~gW~gFN~gs~~~~~~~~~~a~~NT~la~a~g~lt~~~~~~~~~~k~ 289 (321)
|+.|.+. -...||..=..+..+.+| +|+.+..+- +.+ -+..+..+.+.+++.-++.+.++
T Consensus 148 r~eRG~~~siWn~shNiGGal~~~~~~l-a~~~~~~~w------~~~-----f~~pgiiaiival~~~~~~rd~P 210 (448)
T COG2271 148 RKERGTWWSIWNTSHNIGGALAPLVALL-AFFAFHGGW------RAA-----FYFPGIIAIIVALILLFLLRDRP 210 (448)
T ss_pred ccccCceEEEehhhhhcccchHHHHHHH-HHHHhccch------hHH-----HHHHHHHHHHHHHHHHHHhCCCc
Confidence 5544331 134688766666666666 666654411 111 24455555666666555544443
No 20
>COG4280 Predicted membrane protein [Function unknown]
Probab=23.17 E-value=97 Score=28.59 Aligned_cols=31 Identities=29% Similarity=0.448 Sum_probs=24.4
Q ss_pred HHHHHcCCCCCCCCCCCCCcHHHHHHHHHHHHHhhh
Q 020780 211 AAYWVGPRLKSDKERFPPNNVLLMLAGAGLLWMGWS 246 (321)
Q Consensus 211 ~a~~lgpR~~~~~~~~~~~n~~~~~lGt~lLw~gW~ 246 (321)
.++.+||-. ..-|-|+...+.|.+++|+||=
T Consensus 50 l~lvlGk~L-----~lvPln~lqiv~gvLLllFG~r 80 (236)
T COG4280 50 LTLVLGKLL-----YLVPLNYLQIVSGVLLLLFGYR 80 (236)
T ss_pred HHHHHccce-----eeeechHHHHHHHHHHHHHHHH
Confidence 356677765 3568899999999999999974
No 21
>TIGR00123 cbiM cobalamin biosynthesis protein CbiM. In Methanobacterium thermoautotrophicum, Archaeoglobus fulgidus, and Methanococcus jannaschii, a second homolog of cbiM is also found. These cbiM-related proteins appear to represent a distinct but less well-conserved orthologous group. Still more distant homologs include sll0383 from Synechocystis sp. and HI1621 from Haemophilus influenzae; the latter protein, from a species that does not synthesize cobalamin, is the most divergent member of the group. The functions of and relationships among the set of proteins homologous to cbiM have not been determined.
Probab=23.14 E-value=3e+02 Score=25.20 Aligned_cols=29 Identities=17% Similarity=0.139 Sum_probs=21.1
Q ss_pred hhhccCceeecCceeehhhhhHHHHHHHHHHcCCC
Q 020780 185 FLYQWGVIDYSGGYVIHVSSGIAGLTAAYWVGPRL 219 (321)
Q Consensus 185 wL~~lG~~DfaGs~vVH~~gG~~gL~~a~~lgpR~ 219 (321)
|+-+.+. -|+..+|..|+. ..++++|||.
T Consensus 56 ~~i~~pi---~gG~s~Hllg~~---l~~lllGp~~ 84 (214)
T TIGR00123 56 SALKLPS---VTGSCSHPTGNG---LAVVLFGPAV 84 (214)
T ss_pred HHhCCCC---CCcchhhHhHHH---HHHHHHhHHH
Confidence 6556553 468899999886 4678889874
No 22
>PRK11909 cobalt transport protein CbiM; Provisional
Probab=21.77 E-value=6.4e+02 Score=23.30 Aligned_cols=29 Identities=24% Similarity=0.502 Sum_probs=19.0
Q ss_pred hhhccCceeecCceeehhhhhHHHHHHHHHHcCCC
Q 020780 185 FLYQWGVIDYSGGYVIHVSSGIAGLTAAYWVGPRL 219 (321)
Q Consensus 185 wL~~lG~~DfaGs~vVH~~gG~~gL~~a~~lgpR~ 219 (321)
|+-+.+. -++..+|..+.. ..++++||+.
T Consensus 54 ~~i~~pi---~~G~s~H~lg~~---l~~lllGp~~ 82 (230)
T PRK11909 54 MMFNVPI---PGGTTAHAVGGT---LIAILLGPWA 82 (230)
T ss_pred HHhcCCC---CCCCchhHHHHH---HHHHHHhHHH
Confidence 5545553 334569998875 5677889874
Done!