Query         gi|254780896|ref|YP_003065309.1| ABC transporter membrane spanning protein (branched chain amino acid) [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 351
No_of_seqs    156 out of 4108
Neff          8.1 
Searched_HMMs 39220
Date          Mon May 30 00:39:15 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780896.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 PRK11301 livM leucine/isoleuci 100.0       0       0  450.3  33.9  312   25-351    96-416 (416)
  2 COG4177 LivM ABC-type branched 100.0       0       0  376.7  33.0  285   37-347    26-312 (314)
  3 TIGR03408 urea_trans_UrtC urea 100.0       0       0  353.1  30.5  283   33-342     2-313 (313)
  4 cd06581 TM_PBP1_LivM_like Tran 100.0       0       0  336.1  25.0  268   46-341     1-268 (268)
  5 TIGR03622 urea_t_UrtB_arc urea 100.0       0       0  328.6  29.5  278   37-346     2-282 (283)
  6 TIGR03409 urea_trans_UrtB urea 100.0       0       0  322.7  30.0  279   38-344     3-290 (291)
  7 PRK10740 branched-chain amino  100.0       0       0  317.9  31.1  287   39-346    12-306 (308)
  8 cd06582 TM_PBP1_LivH_like Tran 100.0       0       0  304.7  28.2  268   43-340     2-272 (272)
  9 COG0559 LivH Branched-chain am 100.0 1.4E-45       0  296.2  29.5  279   39-346    10-296 (297)
 10 pfam02653 BPD_transp_2 Branche 100.0 5.1E-43       0  279.1  26.3  263   39-330     2-265 (267)
 11 cd06574 TM_PBP1_branched-chain 100.0 2.4E-43       0  281.1  23.7  239   46-301     1-247 (266)
 12 cd06579 TM_PBP1_transp_AraH_li 100.0 3.5E-44       0  286.2  18.8  254   47-333     2-261 (263)
 13 PRK11618 inner membrane ABC tr 100.0 2.3E-37 5.9E-42  244.8  25.0  305   10-344     4-316 (317)
 14 PRK11285 araH L-arabinose tran 100.0 3.4E-36 8.6E-41  237.7  24.5  271   28-333    45-321 (327)
 15 COG1172 AraH Ribose/xylose/ara 100.0 3.4E-36 8.6E-41  237.7  24.4  268   31-333    30-304 (316)
 16 PRK09512 rbsC ribose ABC trans 100.0 2.1E-36 5.4E-41  238.9  22.7  278   24-332    31-314 (321)
 17 PRK09478 mglC beta-methylgalac 100.0 2.1E-35 5.4E-40  232.8  27.3  278   29-333    32-326 (336)
 18 PRK09699 D-allose transporter  100.0   1E-35 2.5E-40  234.8  24.7  294    4-332    16-317 (325)
 19 COG4214 XylH ABC-type xylose t 100.0 1.1E-29 2.7E-34  198.1  18.1  307    5-332    17-384 (394)
 20 cd06580 TM_PBP1_transp_TpRbsC_ 100.0 1.9E-28 4.8E-33  190.6  22.5  205   48-302     3-212 (234)
 21 COG1079 Uncharacterized ABC-ty 100.0 5.3E-26 1.4E-30  175.7  21.4  276   41-336    13-288 (304)
 22 COG4603 ABC-type uncharacteriz  99.9 1.5E-22 3.7E-27  154.8  19.6  260   34-304    53-317 (356)
 23 COG4158 Predicted ABC-type sug  99.9 1.3E-24 3.4E-29  167.2   2.8  248   28-298    41-294 (329)
 24 COG4120 ABC-type uncharacteriz  99.9 1.7E-20 4.4E-25  142.2  18.4  222   39-277     6-227 (293)
 25 COG4211 MglC ABC-type glucose/  99.7 5.9E-18 1.5E-22  126.8  -0.6  251   26-291    29-296 (336)
 26 cd06550 TM_ABC_iron-siderophor  97.3   0.011 2.7E-07   34.0  13.4   40  206-245   148-187 (261)
 27 PRK10440 iron-enterobactin tra  96.9   0.027 6.8E-07   31.6  27.4  112  206-336   210-326 (330)
 28 PRK09535 btuC corrinoid ABC tr  96.4   0.055 1.4E-06   29.7  20.5  109  206-335   246-360 (366)
 29 PRK10577 iron-hydroxamate tran  95.6    0.13 3.4E-06   27.4  26.9  115  206-336   213-331 (666)
 30 pfam01032 FecCD FecCD transpor  95.5    0.15 3.7E-06   27.1  26.9   89  206-302   196-287 (312)
 31 PRK09777 fecD iron-dicitrate t  95.3    0.17 4.4E-06   26.7  28.1  116  206-337   200-318 (318)
 32 PRK11228 fecC iron-dicitrate t  95.0    0.21 5.4E-06   26.1  21.1   89  206-302   205-296 (323)
 33 PRK03784 vtamin B12-transporte  94.9    0.22 5.7E-06   26.0  27.5  114  207-337   210-327 (330)
 34 PRK10441 iron-enterobactin tra  94.8    0.24 6.1E-06   25.8  28.4  114  206-336   213-329 (335)
 35 pfam00950 ABC-3 ABC 3 transpor  94.1    0.34 8.6E-06   24.9  18.7   37  206-242   144-180 (258)
 36 COG1108 ZnuB ABC-type Mn2+/Zn2  94.0    0.35   9E-06   24.8  18.2   36  206-241   153-188 (274)
 37 COG0609 FepD ABC-type Fe3+-sid  91.0     0.9 2.3E-05   22.3  26.6  114  207-336   213-329 (334)
 38 PRK09543 znuB high-affinity zi  89.9     1.1 2.9E-05   21.7  21.1   36  207-242   145-180 (261)
 39 COG4779 FepG ABC-type enteroba  72.9     5.4 0.00014   17.6  12.2   83  206-296   226-310 (346)
 40 TIGR00512 aIF-2BI_fam translat  70.6       2   5E-05   20.2   1.1   25   76-100   221-245 (306)
 41 pfam08566 Pam17 Mitochondrial   69.8     6.3 0.00016   17.2   5.4   24   88-111    73-96  (174)
 42 TIGR01148 mtrC tetrahydrometha  67.4     7.1 0.00018   16.9   5.8   55   63-117    73-129 (276)
 43 TIGR01113 mtrE tetrahydrometha  65.3     7.8  0.0002   16.6   5.0   44   68-111    56-99  (298)
 44 TIGR00886 2A0108 nitrite trans  53.9      12 0.00031   15.4   8.0   17  236-252   101-117 (472)
 45 pfam12263 DUF3611 Protein of u  49.9      14 0.00036   15.0   7.6   40  183-222    59-100 (183)
 46 COG4059 MtrE Tetrahydromethano  46.6      16 0.00041   14.7   3.3   42   68-109    62-103 (304)
 47 TIGR02069 cyanophycinase cyano  45.4      11 0.00028   15.7   1.4   30  188-217   190-219 (297)
 48 pfam03137 OATP Organic Anion T  41.3      19 0.00049   14.2   3.6   16   68-83     71-87  (582)
 49 COG4061 MtrC Tetrahydromethano  39.8      21 0.00052   14.1   4.2   45   81-125    88-132 (262)
 50 pfam05957 DUF883 Bacterial pro  38.6      21 0.00054   14.0   2.3   23   89-111    70-92  (94)
 51 COG4575 ElaB Uncharacterized c  37.2      23 0.00057   13.8   2.1   24   88-111    79-102 (104)
 52 KOG3385 consensus               37.1      22 0.00057   13.8   1.9   27  214-240    32-58  (118)
 53 PRK11677 cytochrome d ubiquino  34.6      25 0.00063   13.6   2.4   23   92-114     2-24  (134)
 54 PRK10404 hypothetical protein;  33.3      26 0.00066   13.4   2.2   23   89-111    77-99  (101)
 55 KOG2447 consensus               31.6      28 0.00071   13.3   5.0   72  170-261   188-259 (287)
 56 PRK10132 hypothetical protein;  29.6      30 0.00077   13.1   2.1   21   90-110    84-104 (108)
 57 COG2252 Xanthine/uracil/vitami  29.2      31 0.00078   13.0   9.7   27   66-92     75-101 (436)
 58 TIGR00739 yajC preprotein tran  29.0      31 0.00078   13.0   1.9   15  323-337    10-24  (86)
 59 PRK12277 50S ribosomal protein  26.4      25 0.00064   13.5   0.7   25  209-233    39-63  (84)
 60 COG0182 Predicted translation   25.6      26 0.00066   13.5   0.6   11  214-224   130-140 (346)
 61 TIGR01478 STEVOR variant surfa  23.6      39 0.00099   12.4   3.6   29  177-205   274-302 (315)
 62 PTZ00270 variable surface prot  23.0      20 0.00051   14.1  -0.4   28  187-214   275-302 (333)
 63 PRK10490 sensor protein KdpD;   22.1      41  0.0011   12.2   9.3   19   43-61    426-444 (895)
 64 COG4605 CeuC ABC-type enteroch  21.7      42  0.0011   12.2  16.7   42  208-249   198-239 (316)
 65 COG4854 Predicted membrane pro  21.5      43  0.0011   12.1   3.7   41  209-252    51-91  (126)
 66 COG3763 Uncharacterized protei  20.4      45  0.0011   12.0   2.8   25   91-116     2-26  (71)

No 1  
>PRK11301 livM leucine/isoleucine/valine transporter permease subunit; Provisional
Probab=100.00  E-value=0  Score=450.25  Aligned_cols=312  Identities=33%  Similarity=0.558  Sum_probs=285.5

Q ss_pred             HHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH
Q ss_conf             99997530147237999999999999999999999998432248999999999999999720456530365335788988
Q gi|254780896|r   25 LLFLFLGATKSQKYIDSMGIQILIYVMFAWGLSIVVGSLGLLSLNCVIAYAIGAYSYVILGSRYGLSIWLLIPVSAMISG  104 (351)
Q Consensus        25 ~~~~~~~~~~~~~~~~~~~~~~~i~~l~alGl~li~G~~G~inl~~g~~~~~Gay~~~~l~~~~g~~~~~ai~~a~~~~a  104 (351)
                      +.+....+...++|..++.+..+||+++|+|+|+++|++|++|+||++||++|||+++++..++|+|+|+++|++.++++
T Consensus        96 ~~~~~~~p~~~~~~~~~ia~~~lIY~ilalGLNiv~G~aGllslGhaAFfgIGAYt~AlL~~~~G~~fwlalp~a~l~aa  175 (416)
T PRK11301         96 LVLAVAWPFFVSRGAVDIATLTLIYVILGLGLNIVVGLAGLLDLGYVGFYAVGAYTYALLNHYYGLGFWECLPIAGLMAA  175 (416)
T ss_pred             HHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH
T ss_conf             99999988752136899999999999999778999724330336999999999999999997249978999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCC---------CCCCCCCC
Q ss_conf             987654444543213457777999889899999855540587678857765211212347643---------43433331
Q gi|254780896|r  105 ACGMIMGLPSLKFRGDYLAIATLIMSEIFQNILIKWKPITNGKAGIYVADRLYFLGTTVRSLI---------RFFRFPSS  175 (351)
Q Consensus       105 ~~g~l~g~~~~rl~g~~~~i~Tl~~~~i~~~~~~~~~~~~~g~~gi~~~~~~~~~~~~~~~~~---------~~~~~~~~  175 (351)
                      ++|+++|+|++|+||+|++|+|++++|+++.++.||.++|+|++|+.+.+++..++.+..+..         ..++.+.+
T Consensus       176 ~~g~llG~P~LRLrG~YLAIaTLaf~eIi~~vl~n~~~lTGG~~Gi~gIp~p~lfG~~~~~~~~~~G~~~f~~~~g~~~~  255 (416)
T PRK11301        176 LFGFLLGFPVLRLRGDYLAIVTLGFGEIIRILLLNLTEITGGPNGISQIPKPTLFGLEFSRTAREGGWDTFHEFFGLKYD  255 (416)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             99999988999803359999999999999999984366429975556799733255343444443333110000254556


Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHE
Q ss_conf             00148999999999999999999996130599999996421222334202322367999998799999999999866440
Q gi|254780896|r  176 FVIYEIFMYYVLLGMCFLSASIILWLRRTAISNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMAGAFFAASRDR  255 (351)
Q Consensus       176 ~~~~~~~~~~~~~~~~~~~~~l~~~l~rT~~G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgiaG~l~a~~~~~  255 (351)
                      ......+.|++++.++..+....+++.|||+||++||+||||++||++|+|+.|+|+.+|++|+++||+||++|+++.++
T Consensus       256 ~~~~~~~~Y~val~l~~~~~~v~~~L~rS~~GRal~AIRedE~AA~alGInv~r~KL~AFalsA~~AGlAGaLyA~~~g~  335 (416)
T PRK11301        256 PSHRVIFLYLVALLLVVLTLFVINRLLRMPLGRAWEALREDEIACRSLGLNPTRIKLSAFTIGAAFAGFAGTFFAARQGF  335 (416)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHCCHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCE
T ss_conf             32016999999999999999999998618585899999627999998597769999999999999999999999988163


Q ss_pred             ECCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHC
Q ss_conf             11354315899998898873474223899999999999999998731221000012344420258999999999999985
Q gi|254780896|r  256 ISPDMFKFSENIIVISIVILGGMTSLSKIAKATAILIGVVELCCGMNFYYFNSLLKFDCSFNMRHTTLMVIALFLVILMR  335 (351)
Q Consensus       256 v~p~~~~~~~~~~~~~~vvlGG~gs~~Ga~lGa~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~lilvll~r  335 (351)
                      ++|++|++..|...++++++||+||.+|+++|+.++..++|.++.+               .++++.+++.+++++++||
T Consensus       336 IsP~~F~~~~S~~iL~mVVlGG~Gs~~G~ilGA~il~~LpE~lr~~---------------~~~r~lvfG~lLvl~mlf~  400 (416)
T PRK11301        336 VSPESFTFIESAFILAIVVLGGMGSQLGVILAAILLVVLPELMRDF---------------NEYRMLMFGLLMVLMMIWR  400 (416)
T ss_pred             ECCCCCCHHHHHHHHHHHEECCCCCCHHHHHHHHHHHHHHHHHHHH---------------HHHHHHHHHHHHHHHHHHC
T ss_conf             4833065999999797513327645199999999999999999765---------------6559999999999999986


Q ss_pred             CCCCCCCCCCHHHCCC
Q ss_conf             8996566740210159
Q gi|254780896|r  336 SHSLLRLRTPSNFLER  351 (351)
Q Consensus       336 P~Gl~g~r~~~~~~~~  351 (351)
                      |||+.+.|+|+...||
T Consensus       401 P~GLlp~~r~~~~~~~  416 (416)
T PRK11301        401 PQGLLPMTRPHLELKN  416 (416)
T ss_pred             CCCCCCCCCCCHHHCC
T ss_conf             9988998764313049


No 2  
>COG4177 LivM ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]
Probab=100.00  E-value=0  Score=376.68  Aligned_cols=285  Identities=32%  Similarity=0.516  Sum_probs=261.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHC-CCC-CCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             37999999999999999999999998432248999999999999999720-456-5303653357889889876544445
Q gi|254780896|r   37 KYIDSMGIQILIYVMFAWGLSIVVGSLGLLSLNCVIAYAIGAYSYVILGS-RYG-LSIWLLIPVSAMISGACGMIMGLPS  114 (351)
Q Consensus        37 ~~~~~~~~~~~i~~l~alGl~li~G~~G~inl~~g~~~~~Gay~~~~l~~-~~g-~~~~~ai~~a~~~~a~~g~l~g~~~  114 (351)
                      +|..++..+.++|+++++|+|+++|++|++|+||++|+++|||+++.+.. ..+ .++|++++.+.+++++.+.+.|+|+
T Consensus        26 ~~~~~l~~~~~i~~ilal~lnl~~G~aG~lslGha~F~glGAY~~a~l~~~~~g~~~~~~~l~~~~~~~al~g~l~g~p~  105 (314)
T COG4177          26 PFYLNLLTLILIYAILALGLNLVVGYAGLLSLGHAAFFGLGAYTAALLLARLLGGLSFWLALLLGGLVAALLGLLLGLPA  105 (314)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             78999999999999999999999846006314779999989999999988875134289999999999999999998799


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             43213457777999889899999855540587678857765211212347643434333310014899999999999999
Q gi|254780896|r  115 LKFRGDYLAIATLIMSEIFQNILIKWKPITNGKAGIYVADRLYFLGTTVRSLIRFFRFPSSFVIYEIFMYYVLLGMCFLS  194 (351)
Q Consensus       115 ~rl~g~~~~i~Tl~~~~i~~~~~~~~~~~~~g~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  194 (351)
                      +|+||+|++|+|+++.++++....++...++|++|+...+.+...+.+               ......++..+..+.++
T Consensus       106 lRl~g~ylaI~Tla~~~~~~~~~~~~~~~tgG~~Gl~~i~~~~l~g~~---------------~~~~~~y~~~l~~l~l~  170 (314)
T COG4177         106 LRLRGDYLAIVTLAFGEIFRILLLNATELTGGENGLSGIPRPTLLGFP---------------SRARGLYYLALLLLLLT  170 (314)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHCHHHHCCCCCCCCCCCHHHCCCC---------------CCHHHHHHHHHHHHHHH
T ss_conf             998528999999999999999997166751998771268833230555---------------30299999999999999


Q ss_pred             HHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEECCCCCCHHHHHHHHHHHH
Q ss_conf             99999961305999999964212223342023223679999987999999999998664401135431589999889887
Q gi|254780896|r  195 ASIILWLRRTAISNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMAGAFFAASRDRISPDMFKFSENIIVISIVI  274 (351)
Q Consensus       195 ~~l~~~l~rT~~G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgiaG~l~a~~~~~v~p~~~~~~~~~~~~~~vv  274 (351)
                      ....+++.|||+||.+||+||||+++|++|+|+.++|..+|++|+++||+||++++.++++++|+++++..|+..+.+++
T Consensus       171 ~~~~~~l~~S~~Gr~l~AiRedE~~a~alG~n~~~~Kl~aF~isa~~AGiAGaL~a~~~~~v~p~~f~~~~S~~~l~~vv  250 (314)
T COG4177         171 LLVLERLVRSPFGRALRAIREDEIAARALGINVTRYKLLAFVISAAIAGIAGALYALYLGFVSPESFSFTLSIEVLAMVV  250 (314)
T ss_pred             HHHHHHHHCCCCCHHHHHHCCCHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCEECCHHCCHHHHHHHHHHHH
T ss_conf             99999986497033686661578999985998899999999999999999999999981503800253999999999999


Q ss_pred             HCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHH
Q ss_conf             3474223899999999999999998731221000012344420258999999999999985899656674021
Q gi|254780896|r  275 LGGMTSLSKIAKATAILIGVVELCCGMNFYYFNSLLKFDCSFNMRHTTLMVIALFLVILMRSHSLLRLRTPSN  347 (351)
Q Consensus       275 lGG~gs~~Ga~lGa~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~lilvll~rP~Gl~g~r~~~~  347 (351)
                      +||.||..|+++|+.++...++.++...+.           ...+++.+++..+++++++||||+.|+||+..
T Consensus       251 lGG~Gt~~G~v~Ga~l~~~~~~~l~~~~~~-----------~~~~~~~v~G~llvlv~l~~P~Gl~g~~~~~~  312 (314)
T COG4177         251 LGGAGTLFGALLGAVLVVLLKELLRGLLPR-----------PVEYRLLVFGLLLVLVVLFRPRGLIGERRRRA  312 (314)
T ss_pred             HCCCCCCHHHHHHHHHHHHHHHHHHHHCCC-----------HHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHC
T ss_conf             847643188999999999999999762453-----------15899999999999999983776334034421


No 3  
>TIGR03408 urea_trans_UrtC urea ABC transporter, permease protein UrtC. Members of this protein family are ABC transporter permease proteins 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=100.00  E-value=0  Score=353.08  Aligned_cols=283  Identities=18%  Similarity=0.254  Sum_probs=241.8

Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHCCC-------------------C----
Q ss_conf             14723799999999999999999999999843224899999999999999972045-------------------6----
Q gi|254780896|r   33 TKSQKYIDSMGIQILIYVMFAWGLSIVVGSLGLLSLNCVIAYAIGAYSYVILGSRY-------------------G----   89 (351)
Q Consensus        33 ~~~~~~~~~~~~~~~i~~l~alGl~li~G~~G~inl~~g~~~~~Gay~~~~l~~~~-------------------g----   89 (351)
                      +..++|.+++.+..++|+++|+|+++++|++|++||||++|+++|||++++.....                   +    
T Consensus         2 ~~~~~y~l~l~~~~~iyal~algl~l~~G~~G~~nfgh~af~~lGAY~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~   81 (313)
T TIGR03408         2 FHLSDFRLNLLGKYLCYAIVALGIDLIWGYTGILSLGQGVFFGLGGYAMAMYLKLQASGEGTTGLPDFMLWNGVTELPWF   81 (313)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHCCCCCCHH
T ss_conf             70254799999999999999999999998656953999999999999999999873123311131177764100013046


Q ss_pred             ----CCHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             ----53036533578898898765444454--321345777799988989999985554058767885776521121234
Q gi|254780896|r   90 ----LSIWLLIPVSAMISGACGMIMGLPSL--KFRGDYLAIATLIMSEIFQNILIKWKPITNGKAGIYVADRLYFLGTTV  163 (351)
Q Consensus        90 ----~~~~~ai~~a~~~~a~~g~l~g~~~~--rl~g~~~~i~Tl~~~~i~~~~~~~~~~~~~g~~gi~~~~~~~~~~~~~  163 (351)
                          .+++++++++..++++++.+++.+++  |+|++|+++.|+++.+.++....++...++|++|+...+.....+   
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~a~~~g~~~~~~rl~g~y~ai~Tla~~~~~~~~~~~~~~~~gg~~g~~~~~~~~~~~---  158 (313)
T TIGR03408        82 WQPFASFPFALLAVVLVPGLLAFLLGYFVFRSRIKGVYFSIITQALALALALLFVGQQTGTGGTNGLTDFKTLLGFD---  158 (313)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCC---
T ss_conf             53245699999999999999999999999988611218899999999999999963732258877666762012566---


Q ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             76434343333100148999999999999999999996130599999996421222334202322367999998799999
Q gi|254780896|r  164 RSLIRFFRFPSSFVIYEIFMYYVLLGMCFLSASIILWLRRTAISNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIG  243 (351)
Q Consensus       164 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~rT~~G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAg  243 (351)
                                ..........++.+..++..+..+.++++|||+||.+||+||||++|+++|+|++|+|..+|++|+++||
T Consensus       159 ----------~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~S~~G~~lrAvr~ne~aa~~lGinv~r~k~~aF~isa~lag  228 (313)
T TIGR03408       159 ----------LSSDSTKRALYFLTAALLALAFLLCRWLVRSRFGRVLIAIRDAENRVRFLGYDPANYKVFVFVLSAGIAG  228 (313)
T ss_pred             ----------CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHCCCCHHHHHHHHHHHHHHHHH
T ss_conf             ----------6664213899999999999999999999873898988857616699988288299999999999999999


Q ss_pred             HHHHHHHHHHHEECCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHH
Q ss_conf             99999986644011354315899998898873474223899999999999999998731221000012344420258999
Q gi|254780896|r  244 MAGAFFAASRDRISPDMFKFSENIIVISIVILGGMTSLSKIAKATAILIGVVELCCGMNFYYFNSLLKFDCSFNMRHTTL  323 (351)
Q Consensus       244 iaG~l~a~~~~~v~p~~~~~~~~~~~~~~vvlGG~gs~~Ga~lGa~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  323 (351)
                      +||++++.+.+.++|++++...++..++++++||.||++|+++|+.++..+++......              +..+..+
T Consensus       229 laG~l~a~~~~~v~P~~f~~~~~i~~~~~vvlGG~Gs~~GavlGa~ll~~l~~~~~~~~--------------~~~~~~i  294 (313)
T TIGR03408       229 IAGALYVPQVGIISPSEMGIVPSIEMVIWVAVGGRGTLIGAVLGALLVNYAKTFFSEAF--------------PEAWLYI  294 (313)
T ss_pred             HHHHHHHHHCCEECHHHCCHHHHHHHHHHEEECCCCCCHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHH
T ss_conf             99999998706348343659999998883045688531899999999999999999865--------------6699999


Q ss_pred             HHHHHHHHHHHCCCCCCCC
Q ss_conf             9999999999858996566
Q gi|254780896|r  324 MVIALFLVILMRSHSLLRL  342 (351)
Q Consensus       324 ~~~~lilvll~rP~Gl~g~  342 (351)
                      ++.++++++++||||++|.
T Consensus       295 ~g~ili~ill~~P~GL~Gl  313 (313)
T TIGR03408       295 LGALFVVVVLFLPKGLAGL  313 (313)
T ss_pred             HHHHHHHHHHHCCCCCCCC
T ss_conf             9999999999918972178


No 4  
>cd06581 TM_PBP1_LivM_like Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of branched-chain amino acids (AAs). These types of transporters generally bind type 1 PBPs. PBP-dependent ABC transporters consist of a PBP, two TMs, and two cytoplasmic ABCs, and are mainly involved in importing solutes from the environment. The solute is captured by the PBP, which delivers it to a gated translocation pathway formed by the two TMs. The two ABCs bind and hydrolyze ATP and drive the transport reaction. E. coli LivM forms a heterodimer with another TM, LivH, to generate the transmembrane pore. LivH is not included in this subgroup. The LIV-1/LS transporter is comprised of two TMs (LivM and LivH), two ABCs (LivG and LivF), and one of two alternative PBPs, LivJ (LIV-BP) or LivK (LS-BP). In addition to transpo
Probab=100.00  E-value=0  Score=336.05  Aligned_cols=268  Identities=32%  Similarity=0.561  Sum_probs=229.3

Q ss_pred             HHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999999999999998432248999999999999999720456530365335788988987654444543213457777
Q gi|254780896|r   46 ILIYVMFAWGLSIVVGSLGLLSLNCVIAYAIGAYSYVILGSRYGLSIWLLIPVSAMISGACGMIMGLPSLKFRGDYLAIA  125 (351)
Q Consensus        46 ~~i~~l~alGl~li~G~~G~inl~~g~~~~~Gay~~~~l~~~~g~~~~~ai~~a~~~~a~~g~l~g~~~~rl~g~~~~i~  125 (351)
                      .++|+++|+|+++++|.+|.+|++|++++++|||.++++..+.++|+|++++++.++++++|.+++++..|.|++++.+.
T Consensus         1 ~~IyaliAlGltli~g~~g~in~a~g~~~~lgay~~~~~~~~~g~~~~lai~~a~~~~~~~G~~~~~l~~r~~~~~~~i~   80 (268)
T cd06581           1 ILIYAILALGLNLLLGYAGQLSLGHAAFFGIGAYTAALLATRLGLPFWLALLAAGLVAALVGLLLGLPALRLRGVYFAIA   80 (268)
T ss_pred             CHHHHHHHHHHHHHHHHCCCEEHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCEEEEEECCCHHHHH
T ss_conf             98899999999999998193609999999999999999998807669999999999999999860234565265379999


Q ss_pred             HHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCH
Q ss_conf             99988989999985554058767885776521121234764343433331001489999999999999999999961305
Q gi|254780896|r  126 TLIMSEIFQNILIKWKPITNGKAGIYVADRLYFLGTTVRSLIRFFRFPSSFVIYEIFMYYVLLGMCFLSASIILWLRRTA  205 (351)
Q Consensus       126 Tl~~~~i~~~~~~~~~~~~~g~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~rT~  205 (351)
                      |++.+..++....+....+.++++.+..+++......              ........+.....+..+..+.++++|||
T Consensus        81 Tl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------------~~~~~~~~~~~~~~~~~~~~l~~~l~rT~  146 (268)
T cd06581          81 TLAFAEIVRLLALNWSSLTGGSNGLSGIPPPLLGGLL--------------LSSPLAFYYLVLAVLLLVLLLLRRLVRSP  146 (268)
T ss_pred             HHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHCCCC--------------CCCCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             9999999999999630235888776777630111444--------------33227999999999999999999998613


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEECCCCCCHHHHHHHHHHHHHCCCCCHHHHH
Q ss_conf             99999996421222334202322367999998799999999999866440113543158999988988734742238999
Q gi|254780896|r  206 ISNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMAGAFFAASRDRISPDMFKFSENIIVISIVILGGMTSLSKIA  285 (351)
Q Consensus       206 ~G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgiaG~l~a~~~~~v~p~~~~~~~~~~~~~~vvlGG~gs~~Ga~  285 (351)
                      +||++||++||||+||.+|||++|++..+|++|+++||++|++++.+.+.++|++++...+...++++++||.||++|++
T Consensus       147 ~G~~irAvg~n~~aA~~~GInv~rv~~~~f~isg~laglaG~l~~~~~~~~~p~~~g~~~~~~~~~~~vlGG~gsi~Ga~  226 (268)
T cd06581         147 FGRALRAIRENEVAAEALGINVTRYKLLAFALSAALAGLAGALYAHYLGFVSPESFGFALSIELLLMVVLGGLGSLLGPV  226 (268)
T ss_pred             CCEEHHHHHCCHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHEEECCCCHHHHH
T ss_conf             66358875328599997796899999999999999999999999987166180130189999999886154887659999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCC
Q ss_conf             99999999999998731221000012344420258999999999999985899656
Q gi|254780896|r  286 KATAILIGVVELCCGMNFYYFNSLLKFDCSFNMRHTTLMVIALFLVILMRSHSLLR  341 (351)
Q Consensus       286 lGa~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~lilvll~rP~Gl~g  341 (351)
                      +|+.+++.+++....+.              +.++....+..+++++++|||||+|
T Consensus       227 iG~lilg~~~~~~~~~~--------------~~~~~~~~~~ili~vll~rP~GlfG  268 (268)
T cd06581         227 LGAALLVLLPELLRSLG--------------PGLRLLVFGLLLILVVLFLPRGLVG  268 (268)
T ss_pred             HHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHCCCCCCC
T ss_conf             99999999999999860--------------7899999999999999985998869


No 5  
>TIGR03622 urea_t_UrtB_arc urea ABC transporter, permease protein UrtB. Members of this protein family are ABC transporter permease subunits restricted to the Archaea. Several lines of evidence suggest this protein is functionally analogous, as well as homologous, to the UrtB subunit of the Corynebacterium glutamicum urea transporter. All members of the operon show sequence similarity to urea transport subunits, the gene is located near the urease structural subunits in two of three species, and partial phylogenetic profiling identifies this permease subunit as closely matching the profile of urea utilization.
Probab=100.00  E-value=0  Score=328.60  Aligned_cols=278  Identities=15%  Similarity=0.161  Sum_probs=222.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             37999999999999999999999998432248999999999999999720456530365335788988987654444543
Q gi|254780896|r   37 KYIDSMGIQILIYVMFAWGLSIVVGSLGLLSLNCVIAYAIGAYSYVILGSRYGLSIWLLIPVSAMISGACGMIMGLPSLK  116 (351)
Q Consensus        37 ~~~~~~~~~~~i~~l~alGl~li~G~~G~inl~~g~~~~~Gay~~~~l~~~~g~~~~~ai~~a~~~~a~~g~l~g~~~~r  116 (351)
                      .+.++.++.+.+|+++|+|+++++|++|++||+|++++++|||+++++..+.|+|+|.+++++.++++++|.+.+++..|
T Consensus         2 ~~~l~~l~~~a~yaL~AlGl~Li~g~~g~~nfahg~f~~lGAY~a~~~~~~~glp~~~a~l~~~~~~~~~g~l~~~~~~r   81 (283)
T TIGR03622         2 ALLLQFLDSFAFIVLAAVGLAVIFGMMGVINLAHGEFILVGAYGTTLTYHQAGLPLPVAMVSGVVMTVIFGIIVERLIIQ   81 (283)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             28999999999999999999999988570109999999999999999999970049999999999999999999889998


Q ss_pred             HH-HHH--HHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             21-345--777799988989999985554058767885776521121234764343433331001489999999999999
Q gi|254780896|r  117 FR-GDY--LAIATLIMSEIFQNILIKWKPITNGKAGIYVADRLYFLGTTVRSLIRFFRFPSSFVIYEIFMYYVLLGMCFL  193 (351)
Q Consensus       117 l~-g~~--~~i~Tl~~~~i~~~~~~~~~~~~~g~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  193 (351)
                      .. +.+  ..+.|++...+.+......    .|.+... .+.+.            ...+..........++........
T Consensus        82 ~l~~~~~~~li~t~gl~~i~~~~~~~~----~g~~~~~-~~~p~------------~~~~~~~~~~~~~~~~~~~~~~~~  144 (283)
T TIGR03622        82 HLYDRLLDSMVATFGLALILTQGLRIT----FGNSLDS-ISTPF------------GNVAYGPYTYSTYRVFLPLVAIGV  144 (283)
T ss_pred             HHHHCHHHHHHHHHHHHHHHHHHHHHH----CCCCCCC-CCCCC------------CCCCCCCCCCHHHHHHHHHHHHHH
T ss_conf             860243999999999999999999996----1888756-78886------------544437612329999999999999


Q ss_pred             HHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEECCCCCCHHHHHHHHHHH
Q ss_conf             99999996130599999996421222334202322367999998799999999999866440113543158999988988
Q gi|254780896|r  194 SASIILWLRRTAISNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMAGAFFAASRDRISPDMFKFSENIIVISIV  273 (351)
Q Consensus       194 ~~~l~~~l~rT~~G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgiaG~l~a~~~~~v~p~~~~~~~~~~~~~~v  273 (351)
                      ...++++++|||+||++||++||||+|+++|||++|+|..+|++|+++||+||+++++ ..+++|++ +.....+.++++
T Consensus       145 ~~~l~~~l~rT~~G~a~RAv~~n~~~A~~~GIn~~r~~~~~f~is~~lAg~aG~l~a~-~~~v~p~~-g~~~~~~~~~a~  222 (283)
T TIGR03622       145 LVGLYVLFTRTEFGVRARATIQDPETARAMGVDTDRMYVTTFAIGSGLAGLTGALYAP-IGAITPDR-GSIFLVEAFVAV  222 (283)
T ss_pred             HHHHHHHHHHCHHHHHHHHHHCCHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHH-HHCCCCCC-HHHHHHHHHHEE
T ss_conf             9999999986889898899965899997769787489999999999999999999987-50758661-489999986712


Q ss_pred             HHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCH
Q ss_conf             7347422389999999999999999873122100001234442025899999999999998589965667402
Q gi|254780896|r  274 ILGGMTSLSKIAKATAILIGVVELCCGMNFYYFNSLLKFDCSFNMRHTTLMVIALFLVILMRSHSLLRLRTPS  346 (351)
Q Consensus       274 vlGG~gs~~Ga~lGa~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~lilvll~rP~Gl~g~r~~~  346 (351)
                      ++||.||++|+++|+.+++..++....+....+.             .......+++++++||||++|++|..
T Consensus       223 ilGG~gs~~Gaiigg~ilg~~~~~~~~~~~~~~~-------------~~~~~~ili~vL~~rP~Gl~G~~e~~  282 (283)
T TIGR03622       223 VVGGPSVVLGTALAGGLLGFINAVFSNLYGTFVG-------------LIALLIVAIIALRVLPDGITGYIEQW  282 (283)
T ss_pred             EECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHCCCCCCCCHHHC
T ss_conf             1478765589999999999999999999658999-------------99999999999998799857072113


No 6  
>TIGR03409 urea_trans_UrtB urea ABC transporter, permease protein UrtB. Members of this protein family are ABC transporter permease proteins 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=100.00  E-value=0  Score=322.67  Aligned_cols=279  Identities=19%  Similarity=0.219  Sum_probs=217.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHCCC------CCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             799999999999999999999999843224899999999999999972045------65303653357889889876544
Q gi|254780896|r   38 YIDSMGIQILIYVMFAWGLSIVVGSLGLLSLNCVIAYAIGAYSYVILGSRY------GLSIWLLIPVSAMISGACGMIMG  111 (351)
Q Consensus        38 ~~~~~~~~~~i~~l~alGl~li~G~~G~inl~~g~~~~~Gay~~~~l~~~~------g~~~~~ai~~a~~~~a~~g~l~g  111 (351)
                      .+.+-+....+|+++|+|+++++|++|++||+|++|+++|||+++.+....      ++++|++++++.+.++++|.+++
T Consensus         3 ~l~~gl~~g~iyal~AlGl~Li~g~~g~lnfahg~f~~~GAY~~~~~~~~~~~~~~~~~~~~~a~~~a~~~~~l~g~~i~   82 (291)
T TIGR03409         3 QLFSGLSLGSILLLAALGLAITFGQMGVINMAHGEFIMIGAYTTYVVQQLFSAPGLADLYLLIAIPLAFLVSALLGALIE   82 (291)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             79999999999999999999999893820099999999999999999998705235578999999999999999999999


Q ss_pred             HHHHHH-HH--HHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             445432-13--457777999889899999855540587678857765211212347643434333310014899999999
Q gi|254780896|r  112 LPSLKF-RG--DYLAIATLIMSEIFQNILIKWKPITNGKAGIYVADRLYFLGTTVRSLIRFFRFPSSFVIYEIFMYYVLL  188 (351)
Q Consensus       112 ~~~~rl-~g--~~~~i~Tl~~~~i~~~~~~~~~~~~~g~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  188 (351)
                      ++..|. ++  ....+.|++...+++.......    |.+......+....+.     ...    ......+..+++...
T Consensus        83 ~~~~r~l~~~~~~~~i~t~g~~~~l~~~~~~~~----g~~~~~~~~p~~~~~~-----~~~----~g~~~~~~~~~~~~~  149 (291)
T TIGR03409        83 RTVIRHLYGRPLDTLLATWGISLILQQAARSIF----GAPNVPVTAPEWLSGG-----LEI----TGALSLPYNRLFIIV  149 (291)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHC----CCCCCCCCCCHHHCCC-----CCC----CCCCCCCHHHHHHHH
T ss_conf             999998812659999999999999999999930----8887676781430376-----011----675223199999999


Q ss_pred             HHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEECCCCCCHHHHHH
Q ss_conf             99999999999961305999999964212223342023223679999987999999999998664401135431589999
Q gi|254780896|r  189 GMCFLSASIILWLRRTAISNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMAGAFFAASRDRISPDMFKFSENII  268 (351)
Q Consensus       189 ~~~~~~~~l~~~l~rT~~G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgiaG~l~a~~~~~v~p~~~~~~~~~~  268 (351)
                      ..+.++..++++++|||+||++||++|||++||++|||++|+|..+|++|+++||++|++++. .+.++|+. +...+..
T Consensus       150 ~~~~~~~~l~~~l~rT~~G~~lrAi~~n~~aA~~~GInv~r~~~~af~is~~laglaG~l~a~-~~~v~p~~-g~~~~~~  227 (291)
T TIGR03409       150 LALAVLLALALLLYRTRLGLRVRAVTQNRVMAAALGINTRRVDALTFALGSGIAGVAGVALTL-IGNVGPTL-GQGYIVD  227 (291)
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHCCHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHH-HHCCCCCC-HHHHHHH
T ss_conf             999999999999837856588888724799999859989999999999999999999999998-86589752-3999999


Q ss_pred             HHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             8898873474223899999999999999998731221000012344420258999999999999985899656674
Q gi|254780896|r  269 VISIVILGGMTSLSKIAKATAILIGVVELCCGMNFYYFNSLLKFDCSFNMRHTTLMVIALFLVILMRSHSLLRLRT  344 (351)
Q Consensus       269 ~~~~vvlGG~gs~~Ga~lGa~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~lilvll~rP~Gl~g~r~  344 (351)
                      .++++++||+||++|+++|+.+++..++....+...             .++..+.+..+++++++|||||+|+|+
T Consensus       228 ~~~~~vlGG~gs~~Gai~Ga~~lg~l~~~~~~~~~~-------------~~~~~~~~~~li~vLl~rP~Gl~g~k~  290 (291)
T TIGR03409       228 SFLVVVFGGVGSLWGTVVAAFGLGVANKILEYFTGA-------------SLAKVLVLVLIILFLQWRPQGLFALKG  290 (291)
T ss_pred             HHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHCCCCCCCCCC
T ss_conf             999999746564589999999999999999987028-------------999999999999999986998689998


No 7  
>PRK10740 branched-chain amino acid transporter permease subunit LivH; Reviewed
Probab=100.00  E-value=0  Score=317.94  Aligned_cols=287  Identities=16%  Similarity=0.209  Sum_probs=210.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHCC---CCC-CHHHHHHHHHHHH----HHHHHHH
Q ss_conf             9999999999999999999999984322489999999999999997204---565-3036533578898----8987654
Q gi|254780896|r   39 IDSMGIQILIYVMFAWGLSIVVGSLGLLSLNCVIAYAIGAYSYVILGSR---YGL-SIWLLIPVSAMIS----GACGMIM  110 (351)
Q Consensus        39 ~~~~~~~~~i~~l~alGl~li~G~~G~inl~~g~~~~~Gay~~~~l~~~---~g~-~~~~ai~~a~~~~----a~~g~l~  110 (351)
                      ..+-+....+|+++|+|+++++|++|++||+||+++++|||.++++...   .+. +.|...+.+.+.+    +.++...
T Consensus        12 l~~Gl~~G~iyaL~AlGl~Li~G~~gv~Nfahg~f~~~GaY~~~~l~~~~~~~~~~~~~~~~~~~~~~a~v~~~~~g~~i   91 (308)
T PRK10740         12 MFNGVTLGSTYALIAIGYTMVYGIIGMINFAHGEVYMIGSYVSFMIIAALMMMGIDTSWLLVAAGFVGAIVIASAYGWSI   91 (308)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             99999999999999999999999957797999999999999999999998856531479999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHH
Q ss_conf             44454321345777799988989999985554058767885776521121234764343433331001489999999999
Q gi|254780896|r  111 GLPSLKFRGDYLAIATLIMSEIFQNILIKWKPITNGKAGIYVADRLYFLGTTVRSLIRFFRFPSSFVIYEIFMYYVLLGM  190 (351)
Q Consensus       111 g~~~~rl~g~~~~i~Tl~~~~i~~~~~~~~~~~~~g~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  190 (351)
                      ++...|....+..+.++..+..+..++.+....+.|+++...++..+  +.+.     ....+......+....+.....
T Consensus        92 ~r~~~r~~~~~~~~~~li~t~gl~~~l~~~~~~~~g~~~~~~p~~~~--~~~~-----~~~~~~~~~~~~~~~l~~~~v~  164 (308)
T PRK10740         92 ERVAYRPVRNSKRLIALISAIGMSIFLQNYVSLTEGSRDVALPSLFN--GQWV-----VGHSENFSASITTMQAVIWIVT  164 (308)
T ss_pred             HHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCC--CCCC-----CCCCCCCCEEEHHHHHHHHHHH
T ss_conf             99999986445259999999999999999999803977650785456--7542-----3555454333219999999999


Q ss_pred             HHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEECCCCCCHHHHHHHH
Q ss_conf             99999999996130599999996421222334202322367999998799999999999866440113543158999988
Q gi|254780896|r  191 CFLSASIILWLRRTAISNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMAGAFFAASRDRISPDMFKFSENIIVI  270 (351)
Q Consensus       191 ~~~~~~l~~~l~rT~~G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgiaG~l~a~~~~~v~p~~~~~~~~~~~~  270 (351)
                      +..+..++++++|||+||++||++|||++|+++|||++|+|..+|++++++||+||+++++..+.++|+. +...+...+
T Consensus       165 ~~~~~~l~l~l~rT~~G~a~RAv~~n~~~A~~~GIn~~rv~~~af~i~~~laglaG~l~a~~~~~i~P~~-g~~~~~~~f  243 (308)
T PRK10740        165 FLAMLALTIFIRYSRMGRACRACAEDLKMASLLGINTDRVIALTFVIGAAMAAVAGVLLGQFYGVINPYI-GFMAGMKAF  243 (308)
T ss_pred             HHHHHHHHHHHHCCHHHHHHHHHHCCHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCH-HHHHHHHHH
T ss_conf             9999999999972839689999966788998909889999999999999999999999987743658432-489999998


Q ss_pred             HHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCH
Q ss_conf             9887347422389999999999999999873122100001234442025899999999999998589965667402
Q gi|254780896|r  271 SIVILGGMTSLSKIAKATAILIGVVELCCGMNFYYFNSLLKFDCSFNMRHTTLMVIALFLVILMRSHSLLRLRTPS  346 (351)
Q Consensus       271 ~~vvlGG~gs~~Ga~lGa~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~lilvll~rP~Gl~g~r~~~  346 (351)
                      +++++||+||++|+++|+.+++..|+....+..             ..++....+..+++++++|||||+|+||.+
T Consensus       244 ~~vvlGGlGs~~Gaivgal~lg~~e~~~~~~~~-------------~~~~~~~~~~llilvLl~rP~GLfG~~~~~  306 (308)
T PRK10740        244 TAAVLGGIGSIPGAMIGGLILGIAEALSSAYLS-------------TEYKDVVSFALLILVLLVMPTGILGRPEVE  306 (308)
T ss_pred             HHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHCC-------------HHHHHHHHHHHHHHHHHHCCCCCCCCCCEE
T ss_conf             962137877489999999999999999998623-------------789999999999999998599868998100


No 8  
>cd06582 TM_PBP1_LivH_like Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of branched-chain amino acids (AAs). These types of transporters generally bind type 1 PBPs. PBP-dependent ABC transporters consist of a PBP, two TMs, and two cytoplasmic ABCs, and are mainly involved in importing solutes from the environment. The solute is captured by the PBP, which delivers it to a gated translocation pathway formed by the two TMs. The two ABCs bind and hydrolyze ATP and drive the transport reaction. E. coli LivH forms a heterodimer with another TM, LivM, to generate the transmembrane pore. LivM is not included in this subgroup. The LIV-1/LS transporter is comprised of two TMs (LivM and LivH), two ABCs (LivG and LivF), and one of two alternative PBPs, LivJ (LIV-BP) or LivK (LS-BP). In addition to transpo
Probab=100.00  E-value=0  Score=304.73  Aligned_cols=268  Identities=22%  Similarity=0.289  Sum_probs=210.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH---HH
Q ss_conf             999999999999999999984322489999999999999997204565303653357889889876544445432---13
Q gi|254780896|r   43 GIQILIYVMFAWGLSIVVGSLGLLSLNCVIAYAIGAYSYVILGSRYGLSIWLLIPVSAMISGACGMIMGLPSLKF---RG  119 (351)
Q Consensus        43 ~~~~~i~~l~alGl~li~G~~G~inl~~g~~~~~Gay~~~~l~~~~g~~~~~ai~~a~~~~a~~g~l~g~~~~rl---~g  119 (351)
                      +....+|+++|+|+++++|++|++|++|++++++|||+++.+..++++|+|.+++++.++++++|.+++.+..|.   +.
T Consensus         2 L~~a~i~ai~Algl~l~~g~~G~i~lg~~~~~~lgay~~~~l~~~~g~~~~~~~~~a~~~~~~~g~~~g~~~~r~~~~~~   81 (272)
T cd06582           2 LALGAIYALIALGLTLIFGVTGVINFAHGEFYMLGAYVAYTLLVALGLPFWLALLLALLVAALLGVLLERLVLRPLRGAP   81 (272)
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             78999999999999999999198608999999999999999999837649999999999999999999999999996410


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             45777799988989999985554058767885776521121234764343433331001489999999999999999999
Q gi|254780896|r  120 DYLAIATLIMSEIFQNILIKWKPITNGKAGIYVADRLYFLGTTVRSLIRFFRFPSSFVIYEIFMYYVLLGMCFLSASIIL  199 (351)
Q Consensus       120 ~~~~i~Tl~~~~i~~~~~~~~~~~~~g~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  199 (351)
                      .+..+.|++..............   +..+....+...       +.....     .........+.+...+.....+++
T Consensus        82 ~~~~~~t~~~~~~~~~~~~~~~~---~~~~~~~~~~~~-------~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~  146 (272)
T cd06582          82 LLTLLITFGGLLILLQGLLLIFG---GDPRVPPPPLLS-------GSVELG-----GVTIPPYRLFIIAVALVLLAALYL  146 (272)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHC---CCCCCCCCCCCC-------CCHHCC-----CCCCCHHHHHHHHHHHHHHHHHHH
T ss_conf             79999999999999999999606---888777865332-------103316-----603418999999999999999999


Q ss_pred             HHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEECCCCCCHHHHHHHHHHHHHCCCC
Q ss_conf             96130599999996421222334202322367999998799999999999866440113543158999988988734742
Q gi|254780896|r  200 WLRRTAISNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMAGAFFAASRDRISPDMFKFSENIIVISIVILGGMT  279 (351)
Q Consensus       200 ~l~rT~~G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgiaG~l~a~~~~~v~p~~~~~~~~~~~~~~vvlGG~g  279 (351)
                      +++|||+||++||+||||++||++|||++|+|..+|++|+++||+||++++.+.+ .+|+. +...+++.++++++||.|
T Consensus       147 ~l~rT~~Gr~l~Ai~~n~~aA~~~Ginv~r~k~~af~isg~laglaG~l~a~~~~-~~~~~-~~~~~~~~i~~vvlGG~g  224 (272)
T cd06582         147 FLRRTRLGRAIRAVAQNPEAARLLGINVRRVFALTFALGAALAGLAGVLLAPITG-VSPTM-GLLLLLKAFAAVVLGGLG  224 (272)
T ss_pred             HHHHCCCCHHHHHHHCCHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHC-CCCCC-HHHHHHHHHHHEEECCCC
T ss_conf             9983950456847633989998859988898799989999999999999999865-79850-378998887820368988


Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCC
Q ss_conf             2389999999999999999873122100001234442025899999999999998589965
Q gi|254780896|r  280 SLSKIAKATAILIGVVELCCGMNFYYFNSLLKFDCSFNMRHTTLMVIALFLVILMRSHSLL  340 (351)
Q Consensus       280 s~~Ga~lGa~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~lilvll~rP~Gl~  340 (351)
                      |++|+++|+.++..+++....+.+             ..++..+.+..+++++++||||++
T Consensus       225 s~~G~v~Ga~~~~~l~~~~~~~~~-------------~~~~~~~~~~~li~vll~~P~Glf  272 (272)
T cd06582         225 SIPGAVVGGLLLGLAESLAAAYLS-------------SGYKDAVAFVLLILVLLVRPQGLF  272 (272)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHCCCCCC
T ss_conf             569999999999999999998514-------------999999999999999997489999


No 9  
>COG0559 LivH Branched-chain amino acid ABC-type transport system, permease components [Amino acid transport and metabolism]
Probab=100.00  E-value=1.4e-45  Score=296.16  Aligned_cols=279  Identities=24%  Similarity=0.299  Sum_probs=222.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHCCCC----CCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             999999999999999999999998432248999999999999999720456----5303653357889889876544445
Q gi|254780896|r   39 IDSMGIQILIYVMFAWGLSIVVGSLGLLSLNCVIAYAIGAYSYVILGSRYG----LSIWLLIPVSAMISGACGMIMGLPS  114 (351)
Q Consensus        39 ~~~~~~~~~i~~l~alGl~li~G~~G~inl~~g~~~~~Gay~~~~l~~~~g----~~~~~ai~~a~~~~a~~g~l~g~~~  114 (351)
                      +.+-+....+|++.|+|++++||.+|++||+||+++++|||+++......+    ++.....+++.+.++.+|.+.++.+
T Consensus        10 l~nGL~~GsiyaL~AlGltlvygv~rviNfAHG~~~m~Gay~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~g~~~er~v   89 (297)
T COG0559          10 LVNGLSLGSIYALLALGLTLVYGVLRVINFAHGEFFMLGAYAAYLAVALLGPLGALGLLLALPLAFAITALIGLLIERLV   89 (297)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             99999999999999999999999981641133999999999999999973233223799999999999999999999999


Q ss_pred             HHH-H--H-HHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHH
Q ss_conf             432-1--3-45777799988989999985554058767885776521121234764343433331001489999999999
Q gi|254780896|r  115 LKF-R--G-DYLAIATLIMSEIFQNILIKWKPITNGKAGIYVADRLYFLGTTVRSLIRFFRFPSSFVIYEIFMYYVLLGM  190 (351)
Q Consensus       115 ~rl-~--g-~~~~i~Tl~~~~i~~~~~~~~~~~~~g~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  190 (351)
                      .|. +  + ....+.|++.+.++++.....    .|++....++  ...+.     ..    .......+..+.+.+...
T Consensus        90 ~rpl~~~~~l~~liat~G~~l~l~~~~~~~----~g~~~~~~p~--~~~~~-----~~----~~g~~~~~~~~l~~~~~s  154 (297)
T COG0559          90 LRPLRGRPALALLIATLGVSLILQGLARLI----FGPRPVGLPP--ALSGS-----VR----FLGGVTLPTYRLFIIAVS  154 (297)
T ss_pred             HHHHCCCCCHHHHHHHHHHHHHHHHHHHHE----ECCCCCCCCH--HHCCC-----CC----CCCCCCCHHHHHHHHHHH
T ss_conf             999732884699999999999999999993----5876666771--42144-----21----032001069999999999


Q ss_pred             HHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEECCCCCCHHHHHHHH
Q ss_conf             99999999996130599999996421222334202322367999998799999999999866440113543158999988
Q gi|254780896|r  191 CFLSASIILWLRRTAISNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMAGAFFAASRDRISPDMFKFSENIIVI  270 (351)
Q Consensus       191 ~~~~~~l~~~l~rT~~G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgiaG~l~a~~~~~v~p~~~~~~~~~~~~  270 (351)
                      +..+..++++++|||+|+++||+.|||++|+.+|||++|+...+|++++++||+||++++... .++|++ +.....+.+
T Consensus       155 ~~~~~~l~~~l~rT~~G~a~RA~~~n~~~A~l~GInv~~v~~~tf~lg~~lAglaGvl~~~~~-~v~p~~-G~~~~l~~F  232 (297)
T COG0559         155 LALLLGLWLLLRRTRLGRALRAVAENRKMAALLGINVERVIALTFALGGALAGLAGVLLAPIY-TVSPYM-GFLYGLKAF  232 (297)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-CCCCCH-HHHHHHHHH
T ss_conf             999999999999837718898760489899880986899999999999999999999999873-679522-179999999


Q ss_pred             HHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCH
Q ss_conf             9887347422389999999999999999873122100001234442025899999999999998589965667402
Q gi|254780896|r  271 SIVILGGMTSLSKIAKATAILIGVVELCCGMNFYYFNSLLKFDCSFNMRHTTLMVIALFLVILMRSHSLLRLRTPS  346 (351)
Q Consensus       271 ~~vvlGG~gs~~Ga~lGa~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~lilvll~rP~Gl~g~r~~~  346 (351)
                      +++|+||.||++|+++|+.+++..++....            ....+.+...+.+..+++++++||+|++|+||..
T Consensus       233 ~~~VlGGlgSi~GA~~gglliG~~e~~~~~------------~~~~~~~~~~v~f~lli~vLl~rP~GL~g~~~~~  296 (297)
T COG0559         233 AAVVLGGLGSIPGAVLGGLLLGLAESLVSA------------KYFGSEYKDVVAFLLLILVLLVRPQGLFGRKERE  296 (297)
T ss_pred             HHHHCCCCCCHHHHHHHHHHHHHHHHHHCC------------CCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCC
T ss_conf             986426756378999999999999998602------------3326679999999999999997477555755223


No 10 
>pfam02653 BPD_transp_2 Branched-chain amino acid transport system / permease component. This is a large family mainly comprising high-affinity branched-chain amino acid transporter proteins such as E. coli LivH and LivM, both of which are form the LIV-I transport system. Also found with in this family are proteins from the galactose transport system permease and a ribose transport system.
Probab=100.00  E-value=5.1e-43  Score=279.13  Aligned_cols=263  Identities=22%  Similarity=0.248  Sum_probs=204.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999999999999999999999843224899999999999999972045653036533578898898765444454321
Q gi|254780896|r   39 IDSMGIQILIYVMFAWGLSIVVGSLGLLSLNCVIAYAIGAYSYVILGSRYGLSIWLLIPVSAMISGACGMIMGLPSLKFR  118 (351)
Q Consensus        39 ~~~~~~~~~i~~l~alGl~li~G~~G~inl~~g~~~~~Gay~~~~l~~~~g~~~~~ai~~a~~~~a~~g~l~g~~~~rl~  118 (351)
                      +.+.+.+..+|+++|+|+++++ .+|++|++|++++++|+|+++++..+.+.|+|.+++++.+.++++|.+++++..|.|
T Consensus         2 l~~~l~~~~i~~l~Alg~~l~~-~~G~in~a~g~~~~lgay~~~~l~~~~~~~~~~~~~~a~~~~~~~g~i~~~~~~r~~   80 (267)
T pfam02653         2 LLNILTQAAILGIAALGLTLVF-IAGVINLGVGGFMALGAYVAALLLALGGSNLWLALLAGLLVGAAVGLLNGLLVVRLK   80 (267)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH-HHCCCCHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf             8899999999999999999999-978835799999999999999999980530899999999999999997458676521


Q ss_pred             HHHHHHHHHHHHHHHHHHHHH-HHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             345777799988989999985-5540587678857765211212347643434333310014899999999999999999
Q gi|254780896|r  119 GDYLAIATLIMSEIFQNILIK-WKPITNGKAGIYVADRLYFLGTTVRSLIRFFRFPSSFVIYEIFMYYVLLGMCFLSASI  197 (351)
Q Consensus       119 g~~~~i~Tl~~~~i~~~~~~~-~~~~~~g~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  197 (351)
                      .+++. .|+....+...+... +...+.+..+....+.               ..............+..+..+..+..+
T Consensus        81 ~~~~~-~tl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~~~~~~~~~~~~~~~~~~~~~~  144 (267)
T pfam02653        81 VPEVI-VTLLLNFILRGLTLFLLTGILGGPAGTSTIVD---------------LLGFPGLFLSFGFGVIFLLALLLALLV  144 (267)
T ss_pred             CCHHH-HHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCH---------------HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             42999-99999999999999998635578877555532---------------554200211257999999999999999


Q ss_pred             HHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEECCCCCCHHHHHHHHHHHHHCC
Q ss_conf             99961305999999964212223342023223679999987999999999998664401135431589999889887347
Q gi|254780896|r  198 ILWLRRTAISNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMAGAFFAASRDRISPDMFKFSENIIVISIVILGG  277 (351)
Q Consensus       198 ~~~l~rT~~G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgiaG~l~a~~~~~v~p~~~~~~~~~~~~~~vvlGG  277 (351)
                      +++++|||+||++||++|||++||++|||++|+|..+|++|+++||++|++++.+.+.++|+ ++...+.+.++++++||
T Consensus       145 ~~~l~~T~~G~~lrAv~~n~~aA~~~GI~~~~~~~~~f~is~~laglaG~l~~~~~~~~~p~-~~~~~~~~~~~~~viGG  223 (267)
T pfam02653       145 WLLLRRTRFGRALRAVGENPRAARYAGINVKRTKILAFVLSGALAGLAGALLVLSTGSADPN-AGLGLGFDAIAAVVLGG  223 (267)
T ss_pred             HHHHHHCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC-CCHHHHHHHHHEEEECC
T ss_conf             99999588846999996659999886998899999999999999999999999883564878-42769989775101689


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHH
Q ss_conf             42238999999999999999987312210000123444202589999999999
Q gi|254780896|r  278 MTSLSKIAKATAILIGVVELCCGMNFYYFNSLLKFDCSFNMRHTTLMVIALFL  330 (351)
Q Consensus       278 ~gs~~Ga~lGa~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~lil  330 (351)
                      .||++|+++|+.+++.+++....+..           ....++..+.++.+++
T Consensus       224 ~gs~~G~~~ga~~lg~~~~~~~~~~g-----------~~~~~~~~i~g~ill~  265 (267)
T pfam02653       224 AGSPIGAIVGALIIGLLQSLGLTLLG-----------IPPELSLLVQGAILIA  265 (267)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHCC-----------CCHHHHHHHHHHHHHE
T ss_conf             99629999999999999999999829-----------9889999999865113


No 11 
>cd06574 TM_PBP1_branched-chain-AA_like Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of monosaccharides including ribose, galactose, and arabinose. These transporters generally bind type 1 PBPs. PBP-dependent ABC transporters consist of a PBP, two TMs, and two cytoplasmic ABCs, and are mainly involved in importing solutes from the environment. The solute is captured by the PBP which delivers it to a gated translocation pathway formed by the two TMs. The two ABCs bind and hydrolyze ATP and drive the transport reaction. This group includes Escherichia coli LivM and LivH, two TMs which heterodimerize to form the translocation pathway of the E. coli branched-chain AA LIV-1/LS transporter. This transporter is comprised of two TMs (LivM and LivH), two ABCs (LivG and LivF), and one of two alternative PBP
Probab=100.00  E-value=2.4e-43  Score=281.12  Aligned_cols=239  Identities=22%  Similarity=0.290  Sum_probs=192.7

Q ss_pred             HHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999999999999998432248999999999999999720456530365335788988987654444543213457777
Q gi|254780896|r   46 ILIYVMFAWGLSIVVGSLGLLSLNCVIAYAIGAYSYVILGSRYGLSIWLLIPVSAMISGACGMIMGLPSLKFRGDYLAIA  125 (351)
Q Consensus        46 ~~i~~l~alGl~li~G~~G~inl~~g~~~~~Gay~~~~l~~~~g~~~~~ai~~a~~~~a~~g~l~g~~~~rl~g~~~~i~  125 (351)
                      ..+|+++|+|+++++|++|++||+|++++++|||+++.+.. .++|+|++++++.+.++++|.+++++..|.|.+++ +.
T Consensus         1 G~iyal~AlGl~lv~g~~g~inla~g~~~~lGay~~~~~~~-~g~~~~lal~~a~~~~~l~g~~~g~~~~r~~~~~~-i~   78 (266)
T cd06574           1 GLIYAILALGVYIVFRILGFPDLTVDGSFPLGAAVAAILIV-AGYNPWLALIAAILAGAAAGLVTGFLHTRLKINGL-LA   78 (266)
T ss_pred             CHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHH-HH
T ss_conf             97899999999999999087248999999999999999998-71129999999999999999999766620022079-99


Q ss_pred             HHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCH
Q ss_conf             99988989999985554058767885776521121234764343433331001489999999999999999999961305
Q gi|254780896|r  126 TLIMSEIFQNILIKWKPITNGKAGIYVADRLYFLGTTVRSLIRFFRFPSSFVIYEIFMYYVLLGMCFLSASIILWLRRTA  205 (351)
Q Consensus       126 Tl~~~~i~~~~~~~~~~~~~g~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~rT~  205 (351)
                      |+......+.+.........+.......              ................++........+..++++++|||
T Consensus        79 tl~~~~~~~~i~~~~~~~~~~~~~~~~~--------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~rT~  144 (266)
T cd06574          79 GILIMIGLYSINLRIMGGPNIPLGTRDT--------------LLGLLLLFGISGTLSIPVVLLLIVLLVLFLVIWFLRTK  144 (266)
T ss_pred             HHHHHHHHHHHHHHHHCCCCCCCCCCCC--------------CCCHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHCH
T ss_conf             9999999999999996466667787654--------------54135541011006899999999999999999998797


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEECCCCCCHHHHHHHHHHHHHCCCC------
Q ss_conf             99999996421222334202322367999998799999999999866440113543158999988988734742------
Q gi|254780896|r  206 ISNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMAGAFFAASRDRISPDMFKFSENIIVISIVILGGMT------  279 (351)
Q Consensus       206 ~G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgiaG~l~a~~~~~v~p~~~~~~~~~~~~~~vvlGG~g------  279 (351)
                      +||++||++|||++||++|||++|+|..+|++|+++||+||+++++++++++|++ +...+++.++++++||.+      
T Consensus       145 ~G~~lrAvg~n~~aA~~~GInv~r~~~~af~isg~laglAG~l~a~~~~~~~p~~-g~~~~l~~~aavvlGG~~~~~~~~  223 (266)
T cd06574         145 LGLAMRATGDNPDMARSLGINVDRTRILGLVISNALAALGGALYAQYQGFADVNM-GIGTGVIGLAAVIIGGAIVGRRTI  223 (266)
T ss_pred             HHHHHEEEECCHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCC-CHHHHHHHHHHHHCCCEECCCCCC
T ss_conf             8485413438879999869975788878999999999999999999957748562-346999987954238710157998


Q ss_pred             --CHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             --2389999999999999999873
Q gi|254780896|r  280 --SLSKIAKATAILIGVVELCCGM  301 (351)
Q Consensus       280 --s~~Ga~lGa~~l~~~~~~~~~~  301 (351)
                        |++|+++|+.++..+++.....
T Consensus       224 ~gsi~Gavlgall~~~~~~~~~~~  247 (266)
T cd06574         224 KASILGVIIGAILYRIALALALGS  247 (266)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHC
T ss_conf             762799999999999999999982


No 12 
>cd06579 TM_PBP1_transp_AraH_like Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group also contains E. coli RbsC, AlsC, and MglC, which are TMs of other monosaccharide transporters, the ribose transporter, the D-allose transporter and the galactose transporter, respectively. The D-allose transporter may also be involved in low affinity ribose transport. These transporters generally bind type 1 PBPs. PBP-dependent ABC transporters consist of a PBP, two TMs, and two cytoplasmic ABCs, and are mainly involved in importing solutes from the environment. The solute is captured by the PBP, which delivers it to a gated translocation pathway formed by the two TMs. The two ABCs bind and hydrolyze ATP and drive the transport reaction. Proteins in this subgroup have a single TM which homodimerizes to ge
Probab=100.00  E-value=3.5e-44  Score=286.24  Aligned_cols=254  Identities=19%  Similarity=0.159  Sum_probs=199.5

Q ss_pred             HHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999999999999984322489999999999999997204565303653357889889876544445432134577779
Q gi|254780896|r   47 LIYVMFAWGLSIVVGSLGLLSLNCVIAYAIGAYSYVILGSRYGLSIWLLIPVSAMISGACGMIMGLPSLKFRGDYLAIAT  126 (351)
Q Consensus        47 ~i~~l~alGl~li~G~~G~inl~~g~~~~~Gay~~~~l~~~~g~~~~~ai~~a~~~~a~~g~l~g~~~~rl~g~~~~i~T  126 (351)
                      .+|+++|+|+++++ .+|.+|++|++++++|+|+++++..+.++|+|++++++.++++++|.+.+++..|.|.+++ ++|
T Consensus         2 aiyal~AlGl~lv~-~~g~inla~ga~~~lGay~~~~l~~~~g~~~~~~~~~a~~~~~~~g~i~g~l~~r~~~~~~-i~T   79 (263)
T cd06579           2 AVLGILALGMTLVI-ITGGIDLSVGSVAALSAVVAALLLVNAGLPIPLAILAALAVGALIGLLNGLLVAYLRIPPF-IVT   79 (263)
T ss_pred             HHHHHHHHHHHHHH-HHCCCCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHH-HHH
T ss_conf             79999999999999-9869738999999999999999999769867999999999999998676278886514689-999


Q ss_pred             HHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCHH
Q ss_conf             99889899999855540587678857765211212347643434333310014899999999999999999999613059
Q gi|254780896|r  127 LIMSEIFQNILIKWKPITNGKAGIYVADRLYFLGTTVRSLIRFFRFPSSFVIYEIFMYYVLLGMCFLSASIILWLRRTAI  206 (351)
Q Consensus       127 l~~~~i~~~~~~~~~~~~~g~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~rT~~  206 (351)
                      ++..++.+.....+.    +.++....+..........   ...       .    .++..+.....+...+++++|||+
T Consensus        80 l~~~~i~~~~~~~~~----~~~~~~~~~~~~~~~~~~~---~~~-------~----~~~~~~~~~~~~~~~~~~l~rT~~  141 (263)
T cd06579          80 LGTMFILRGLALLIT----GGRPISGLPPLFSFFLGGG---LIL-------G----IPVPVLIALAVALVAWFLLRRTRF  141 (263)
T ss_pred             HHHHHHHHHHHHHHC----CCCCCCCCCHHHHHHHHHC---CCC-------C----CHHHHHHHHHHHHHHHHHHCCCCC
T ss_conf             999999999999860----8988777884888775314---556-------5----049999999999998988816756


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEECCCCCCHHHHHHHHHHHHHC------CCCC
Q ss_conf             9999996421222334202322367999998799999999999866440113543158999988988734------7422
Q gi|254780896|r  207 SNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMAGAFFAASRDRISPDMFKFSENIIVISIVILG------GMTS  280 (351)
Q Consensus       207 G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgiaG~l~a~~~~~v~p~~~~~~~~~~~~~~vvlG------G~gs  280 (351)
                      ||++||++|||++||++|+|++|+|..+|++|+++||+||++++.+.++++|+. +.....+.++++++|      |.||
T Consensus       142 G~~lrAv~~n~~~A~~~Gi~v~r~~~~af~is~~laglAG~l~a~~~~~v~p~~-g~~~~~~~~~~vviGG~~~~GG~Gs  220 (263)
T cd06579         142 GRYLYAVGGNPEAARLSGINVRRVKILAYVLSGLLAGLAGILLAARLGSAQPTA-GNGYELDAIAAVVLGGTSLTGGRGS  220 (263)
T ss_pred             CCHHHHHCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCC-CCCCCCCHHEEEEEEEHHHCCCCCC
T ss_conf             110443131899999839986896548998989999999999998836668552-5775321530242320031398367


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             38999999999999999987312210000123444202589999999999999
Q gi|254780896|r  281 LSKIAKATAILIGVVELCCGMNFYYFNSLLKFDCSFNMRHTTLMVIALFLVIL  333 (351)
Q Consensus       281 ~~Ga~lGa~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~lilvll  333 (351)
                      ++|+++|+.+++.+++.+....            ..+.+++...+.+++++++
T Consensus       221 ~~G~viGa~~l~~l~~~l~~~~------------~~~~~~~~v~g~ili~~v~  261 (263)
T cd06579         221 VLGTLLGALLLGVLNNGLNLLG------------VSSFWQQIVKGAILLLAVA  261 (263)
T ss_pred             HHHHHHHHHHHHHHHHHHHHCC------------CCHHHHHHHHHHHHEEEEE
T ss_conf             2999999999999999999829------------9989999999988124577


No 13 
>PRK11618 inner membrane ABC transporter permease protein YjfF; Provisional
Probab=100.00  E-value=2.3e-37  Score=244.76  Aligned_cols=305  Identities=16%  Similarity=0.109  Sum_probs=222.6

Q ss_pred             HHHHHHHHHHHHHHHHHH-H-HHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             669999999999999999-9-75301472379999999999999999999999984322489999999999999997204
Q gi|254780896|r   10 KYDKILCLLAVVYPLLLF-L-FLGATKSQKYIDSMGIQILIYVMFAWGLSIVVGSLGLLSLNCVIAYAIGAYSYVILGSR   87 (351)
Q Consensus        10 ~~~~~~~~~~~~~~~~~~-~-~~~~~~~~~~~~~~~~~~~i~~l~alGl~li~G~~G~inl~~g~~~~~Gay~~~~l~~~   87 (351)
                      |+...+..+++...+..+ . ..|.+.+.+++.++..+..+.+++|+|++++. .+|.+|++.++.++++++..+.+..+
T Consensus         4 r~~p~~i~i~vlivl~i~~~~~~p~Fls~~Nl~~il~~~a~l~I~AlG~t~vi-i~GgIDLSvGs~~~l~~~v~a~l~~~   82 (317)
T PRK11618          4 RNLPLLITIGVFVLGYLFCLVQFPGFASTRVICNLLTDNAFLGIVAVGMTFVI-LSGGIDLSVGSVIAFTGVFLAVLIGR   82 (317)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH-HHCCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf             41459999999999999999918988888999999999999999999999999-95786052999999999999999986


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             56530365335788988987654444543213457777999889899999855540587678857765211212347643
Q gi|254780896|r   88 YGLSIWLLIPVSAMISGACGMIMGLPSLKFRGDYLAIATLIMSEIFQNILIKWKPITNGKAGIYVADRLYFLGTTVRSLI  167 (351)
Q Consensus        88 ~g~~~~~ai~~a~~~~a~~g~l~g~~~~rl~g~~~~i~Tl~~~~i~~~~~~~~~~~~~g~~gi~~~~~~~~~~~~~~~~~  167 (351)
                      .|+|+|+++++++++++++|.++|+.+.|.|-+.+ |+|++...+.+.+....   +++......   +.....      
T Consensus        83 ~g~~~~lai~~~l~~g~~~G~iNG~lv~~~~ipsf-IvTLg~~~i~~Gl~~~~---~~~~~~~~~---~~~~~~------  149 (317)
T PRK11618         83 YGWHPLLAFPLVLVMGALFGALMGALIHYLKLPAF-IVTLAGMFLARGVSFLV---SEESIPINH---PIYDTL------  149 (317)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHH-HHHHHHHHHHHHHHHHH---CCCCCCCCC---CHHHHH------
T ss_conf             69858999999999999999999999999727829-99999999999999986---188724577---247777------


Q ss_pred             CCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             43433331001489999999999999999999961305999999964212223342023223679999987999999999
Q gi|254780896|r  168 RFFRFPSSFVIYEIFMYYVLLGMCFLSASIILWLRRTAISNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMAGA  247 (351)
Q Consensus       168 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~rT~~G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgiaG~  247 (351)
                      ..........   ....+..+.........++.++|||+||+++|+++|||+||.+|||++|+|..+|++||.+||+||.
T Consensus       150 ~~~~~~~~~~---~~ip~~~~i~l~~~~~~~~~l~~T~~GR~lyAvG~N~~AA~~sGI~v~r~~i~~fvisG~~aglAGi  226 (317)
T PRK11618        150 SSLAWKLPGG---GRLTAMALIMLAVVAIGIFLAHRTRFGNNVYAIGGNATSANLMGVPVRRTTIRIYALSGFLAALAGI  226 (317)
T ss_pred             HHHHHHHCCC---CCCHHHHHHHHHHHHHHHHHHHHCHHHCEEEEECCCHHHHHHCCCCCHHEEEHHHHHHHHHHHHHHH
T ss_conf             7777662468---7414999999999999999997482006688867989999994998234220799999999999999


Q ss_pred             HHHHHHHEECCCCCCHHHHHHHHHHHHH------CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHH
Q ss_conf             9986644011354315899998898873------4742238999999999999999987312210000123444202589
Q gi|254780896|r  248 FFAASRDRISPDMFKFSENIIVISIVIL------GGMTSLSKIAKATAILIGVVELCCGMNFYYFNSLLKFDCSFNMRHT  321 (351)
Q Consensus       248 l~a~~~~~v~p~~~~~~~~~~~~~~vvl------GG~gs~~Ga~lGa~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  321 (351)
                      +++.+.+..+|+. +..+.++.++++++      ||.||++|+++|+.++..+++.+....           ...+.++.
T Consensus       227 l~~~~~~s~~~~~-G~~~~l~aIaAvviGGtsl~GG~Gsv~Gt~lGal~l~~i~ngl~l~g-----------~v~~~~q~  294 (317)
T PRK11618        227 VFSLYTSAGYALA-AVGVELDAIAAVVIGGTLLTGGVGTVLGTLFGVLIQGLIQTYITFDG-----------TLSSWWTK  294 (317)
T ss_pred             HHHHHHCCCCCCC-CCCHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCC-----------CCCHHHHH
T ss_conf             9999845818676-76658999999998576778995146999999999999999998637-----------89879999


Q ss_pred             HHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             99999999999985899656674
Q gi|254780896|r  322 TLMVIALFLVILMRSHSLLRLRT  344 (351)
Q Consensus       322 ~l~~~~lilvll~rP~Gl~g~r~  344 (351)
                      ...+.++++ -+.-.||+--+-|
T Consensus       295 ~~~G~ill~-aV~l~r~l~~~~~  316 (317)
T PRK11618        295 IVIGILLFV-FIALQRGLTVLWE  316 (317)
T ss_pred             HHHHHHHHH-HHHHHHHHHHHHC
T ss_conf             999999899-9997414888614


No 14 
>PRK11285 araH L-arabinose transporter permease protein; Provisional
Probab=100.00  E-value=3.4e-36  Score=237.67  Aligned_cols=271  Identities=19%  Similarity=0.253  Sum_probs=209.1

Q ss_pred             HHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             97530147237999999999999999999999998432248999999999999999720456530365335788988987
Q gi|254780896|r   28 LFLGATKSQKYIDSMGIQILIYVMFAWGLSIVVGSLGLLSLNCVIAYAIGAYSYVILGSRYGLSIWLLIPVSAMISGACG  107 (351)
Q Consensus        28 ~~~~~~~~~~~~~~~~~~~~i~~l~alGl~li~G~~G~inl~~g~~~~~Gay~~~~l~~~~g~~~~~ai~~a~~~~a~~g  107 (351)
                      ...|.+.+..++.+++.+....+++|+|++++. .+|.+|++.++.+++++...+.+... +.++|+++++++++++++|
T Consensus        45 i~~p~Fls~~Nl~~il~~~a~l~i~AlG~t~vi-i~GgIDLSvgs~~~l~~v~~~~~~~~-~~~~~lai~~~l~~G~~~G  122 (327)
T PRK11285         45 LFVPNFATFINMKGLGLSISMIGMVACTMMFCL-ASGDFDLSVASVVAFAGVVAAVVINA-TESVWLGVAAGLLAGAAVG  122 (327)
T ss_pred             HHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH-HHCCEEECHHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHH
T ss_conf             947887888899999999999999999999999-93780153988999999999999974-7878999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHH
Q ss_conf             65444454321345777799988989999985554058767885776521121234764343433331001489999999
Q gi|254780896|r  108 MIMGLPSLKFRGDYLAIATLIMSEIFQNILIKWKPITNGKAGIYVADRLYFLGTTVRSLIRFFRFPSSFVIYEIFMYYVL  187 (351)
Q Consensus       108 ~l~g~~~~rl~g~~~~i~Tl~~~~i~~~~~~~~~~~~~g~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  187 (351)
                      .++|+.+.+.|-+.+ |+|++...+.+.+..-   +++|. .+... ++.+....   .....+           .....
T Consensus       123 ~iNG~lv~~~~ip~f-I~TLgt~~i~~Gl~~~---~t~g~-~i~~~-~~~~~~~~---~~~~~g-----------ip~~~  182 (327)
T PRK11285        123 LVNGFVIARLRINAL-ITTLATMQIVRGLAYI---ISDGK-AVGIS-DERFFALG---YASFFG-----------VPAPI  182 (327)
T ss_pred             HHHHHHHHHCCCCHH-HHHHHHHHHHHHHHHE---ECCCE-EECCC-CHHHHHHH---CCCCCC-----------CCHHH
T ss_conf             998386761078579-9999999999987853---32884-32558-88999851---384237-----------54899


Q ss_pred             HHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEECCCCCCHHHHH
Q ss_conf             99999999999996130599999996421222334202322367999998799999999999866440113543158999
Q gi|254780896|r  188 LGMCFLSASIILWLRRTAISNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMAGAFFAASRDRISPDMFKFSENI  267 (351)
Q Consensus       188 ~~~~~~~~~l~~~l~rT~~G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgiaG~l~a~~~~~v~p~~~~~~~~~  267 (351)
                      +..+......++.++|||+||+++|+++||++|+.+|||++|+|..+|+++|.+||+||.+++.+.+..+|+. +..+.+
T Consensus       183 ~i~ii~~~~~~~~l~~T~~Gr~lyAvG~N~~AA~~sGI~v~r~~i~ay~isG~laglAGil~~ar~~s~~~~~-G~~~~l  261 (327)
T PRK11285        183 WLTVACFVVFGFLLNKTVFGRNTLAIGGNEEAARLAGVPVVRTKIIIFVLQGLVSALAGVILASRMTSGQPMT-SIGFEL  261 (327)
T ss_pred             HHHHHHHHHHHHHHHHCCCCEEEEEECCCHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCC-CCCHHH
T ss_conf             9999999999999963405459988169899998818983374019999999999999999999846758576-755599


Q ss_pred             HHHHHHHHC------CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             988988734------742238999999999999999987312210000123444202589999999999999
Q gi|254780896|r  268 IVISIVILG------GMTSLSKIAKATAILIGVVELCCGMNFYYFNSLLKFDCSFNMRHTTLMVIALFLVIL  333 (351)
Q Consensus       268 ~~~~~vvlG------G~gs~~Ga~lGa~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~lilvll  333 (351)
                      +.++++++|      |.||++|+++|++++..+++.+....            ..+.++....+.++++...
T Consensus       262 ~aIAAvvlGGtsl~GG~Gsv~Gt~~Gal~l~~i~ngl~~~g------------v~~~~q~~v~G~iii~aV~  321 (327)
T PRK11285        262 IVISACVLGGVSLKGGIAKISGVVAGVLIMGTVENAMNLLN------------ISPFYQYVVRGLILLAAVL  321 (327)
T ss_pred             HHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCC------------CCHHHHHHHHHHHHHHHHH
T ss_conf             99999998575777997238999999999999999999809------------9889999999999999999


No 15 
>COG1172 AraH Ribose/xylose/arabinose/galactoside ABC-type transport systems, permease components [Carbohydrate transport and metabolism]
Probab=100.00  E-value=3.4e-36  Score=237.67  Aligned_cols=268  Identities=20%  Similarity=0.188  Sum_probs=213.0

Q ss_pred             HHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             301472379999999999999999999999984322489999999999999997204-5653036533578898898765
Q gi|254780896|r   31 GATKSQKYIDSMGIQILIYVMFAWGLSIVVGSLGLLSLNCVIAYAIGAYSYVILGSR-YGLSIWLLIPVSAMISGACGMI  109 (351)
Q Consensus        31 ~~~~~~~~~~~~~~~~~i~~l~alGl~li~G~~G~inl~~g~~~~~Gay~~~~l~~~-~g~~~~~ai~~a~~~~a~~g~l  109 (351)
                      |.+.+.+++.++..+..+.+++|+|++++. .+|.+|++.|+.+++.++.++.+... .+.+++.+++.+.+.++++|++
T Consensus        30 p~Fls~~nl~~il~~~~~lgilA~g~t~vi-itGgIDLSvGsv~al~~~~~a~~~~~~~~~~~~~a~~~~l~~g~~~G~i  108 (316)
T COG1172          30 PGFLSLSNLLNILRQAAILGILALGMTFVI-ITGGIDLSVGSVVALAAVVAASLLAAGGGLPILLALLAALAVGALIGLI  108 (316)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHHHHHH-HHCCCCCCHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf             540489999999999999999999999999-9578556199999999999999998463334899999999999999998


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHH
Q ss_conf             44445432134577779998898999998555405876788577652112123476434343333100148999999999
Q gi|254780896|r  110 MGLPSLKFRGDYLAIATLIMSEIFQNILIKWKPITNGKAGIYVADRLYFLGTTVRSLIRFFRFPSSFVIYEIFMYYVLLG  189 (351)
Q Consensus       110 ~g~~~~rl~g~~~~i~Tl~~~~i~~~~~~~~~~~~~g~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  189 (351)
                      +|..+.|.|-+.+ ++|++...+.+.+..-.   ++|.. +.  . ++.+....+.  ..++           .+...+.
T Consensus       109 NG~lv~~~~ip~f-I~TLgt~~i~rGl~l~~---t~G~~-i~--~-~~~~~~~g~~--~~~G-----------iP~~~~i  167 (316)
T COG1172         109 NGLLVARLRIPPF-IATLGTMFILRGLALLL---TGGRP-IS--L-PDAFAWLGSG--RILG-----------IPVPVII  167 (316)
T ss_pred             HHHHHHHHCCCHH-HHHHHHHHHHHHHHHHH---CCCCC-CC--C-CHHHHHHCCC--CEEC-----------CCHHHHH
T ss_conf             9899998178829-99888999999999887---09926-77--9-7899984358--5428-----------7099999


Q ss_pred             HHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEECCCCCCHHHHHHH
Q ss_conf             99999999999613059999999642122233420232236799999879999999999986644011354315899998
Q gi|254780896|r  190 MCFLSASIILWLRRTAISNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMAGAFFAASRDRISPDMFKFSENIIV  269 (351)
Q Consensus       190 ~~~~~~~l~~~l~rT~~G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgiaG~l~a~~~~~v~p~~~~~~~~~~~  269 (351)
                      .+..+...++.++|||+||+++|+++||++|+.+|||++|+|..+|++|+.+|+++|.+++.+.+..+|+. +..+..+.
T Consensus       168 ~i~~~~~~~~~l~rT~~Gr~iyAvG~N~~AA~~sGI~v~rv~i~~y~isG~lAaiaGi~~~~~~~s~~~~~-g~~~eL~a  246 (316)
T COG1172         168 FIVVAALFWLLLRRTRFGRSIYAVGGNEEAARLSGIPVRRVKIAAYVLSGLLAALAGILLAARLGSAQPNA-GVGYELDA  246 (316)
T ss_pred             HHHHHHHHHHHHHHCCCCCEEEEECCCHHHHHHCCCCCCCEEEHHHHHHHHHHHHHHHHHHHHHCCCCCCC-CCCHHHHH
T ss_conf             99999999999845601478989789899999849881224424689999999999999999965848564-54548888


Q ss_pred             HHHHHHCC------CCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             89887347------42238999999999999999987312210000123444202589999999999999
Q gi|254780896|r  270 ISIVILGG------MTSLSKIAKATAILIGVVELCCGMNFYYFNSLLKFDCSFNMRHTTLMVIALFLVIL  333 (351)
Q Consensus       270 ~~~vvlGG------~gs~~Ga~lGa~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~lilvll  333 (351)
                      ++++|+||      .||+.|+++|++++..+++.+....            ..+.++..+.+..+++.+.
T Consensus       247 IAAvViGGtsL~GG~Gsv~Gt~iGalil~~l~ngl~l~~------------v~~~~q~~i~G~iil~av~  304 (316)
T COG1172         247 IAAVVIGGTSLAGGRGSVIGTLLGALILGVLQNGLNLLG------------VSSYWQQIIKGLIILLAVA  304 (316)
T ss_pred             HHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHC------------CCHHHHHHHHHHHHHHHHH
T ss_conf             897541774766884045999999999999998899929------------9889999999999999999


No 16 
>PRK09512 rbsC ribose ABC transporter permease protein; Reviewed
Probab=100.00  E-value=2.1e-36  Score=238.90  Aligned_cols=278  Identities=14%  Similarity=0.137  Sum_probs=210.1

Q ss_pred             HHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q ss_conf             99999753014723799999999999999999999999843224899999999999999972045653036533578898
Q gi|254780896|r   24 LLLFLFLGATKSQKYIDSMGIQILIYVMFAWGLSIVVGSLGLLSLNCVIAYAIGAYSYVILGSRYGLSIWLLIPVSAMIS  103 (351)
Q Consensus        24 ~~~~~~~~~~~~~~~~~~~~~~~~i~~l~alGl~li~G~~G~inl~~g~~~~~Gay~~~~l~~~~g~~~~~ai~~a~~~~  103 (351)
                      ...-...|.+.+..++.++..+..+++++|+|++++. .+|.+|++.++.+++++..++.+. ..+.|+|++++++.+++
T Consensus        31 ~~f~~~~p~Fls~~N~~~il~~~a~~~ilalG~~~vi-i~GgiDLSvgs~~~l~~~~~~~l~-~~~~~~~lai~~~l~~G  108 (321)
T PRK09512         31 AIVSTLSPNFFTVNNLFNILQQTSVNAIMAVGMTLVI-LTSGIDLSVGSLLALTGAVAASIV-GIEVNALVAVPAALALG  108 (321)
T ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH-HCCCCCCCHHHHHHHHHHHHHHHH-HCCCCHHHHHHHHHHHH
T ss_conf             9999938886888999999999999999999999999-928973759999999999999984-36897899999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHH
Q ss_conf             89876544445432134577779998898999998555405876788577652112123476434343333100148999
Q gi|254780896|r  104 GACGMIMGLPSLKFRGDYLAIATLIMSEIFQNILIKWKPITNGKAGIYVADRLYFLGTTVRSLIRFFRFPSSFVIYEIFM  183 (351)
Q Consensus       104 a~~g~l~g~~~~rl~g~~~~i~Tl~~~~i~~~~~~~~~~~~~g~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  183 (351)
                      +++|.++|+.+.+.|-+.+ |+|++...+.+.+.....   +|.. +..... ..     .+.....+. ......    
T Consensus       109 ~~~G~iNG~lV~~~~ip~~-I~TLgt~~i~~Gl~~~~t---~g~~-i~~~~~-~~-----~~~~~~~~~-g~~~gi----  172 (321)
T PRK09512        109 AAIGAVTGVIVAKGKVQAF-IATLVMMLLLRGVTMVYT---DGSP-INTGFT-DN-----ADLFGWFGI-GRPLGV----  172 (321)
T ss_pred             HHHHHHHHHHHHHCCCCHH-HHHHHHHHHHHHHHHHHH---CCCC-CCCCCC-CC-----HHHHHHHHC-CCCCCC----
T ss_conf             9999998587763367779-999999999999999982---9921-246776-43-----589999743-651565----


Q ss_pred             HHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEECCCCCCH
Q ss_conf             99999999999999999613059999999642122233420232236799999879999999999986644011354315
Q gi|254780896|r  184 YYVLLGMCFLSASIILWLRRTAISNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMAGAFFAASRDRISPDMFKF  263 (351)
Q Consensus       184 ~~~~~~~~~~~~~l~~~l~rT~~G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgiaG~l~a~~~~~v~p~~~~~  263 (351)
                      +...+....+....++.++|||+||+++|+++|||+||.+|||++|+|..+|+++|.+||++|.+++.+.++.+|+. +.
T Consensus       173 p~~~~i~i~v~ii~~~~l~~T~~Gr~lyAiG~N~~AA~~sGI~v~r~~i~~f~lsg~laglaGil~~~~~~s~~p~~-g~  251 (321)
T PRK09512        173 PTPVWIMAIVFAAAWYMLHHTRLGRYIYALGGNEAATRLSGINVNKIKIIVYSLCGLLAALAGIIEVARLSSAQPTA-GT  251 (321)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHEEEEEECCCHHHHHHHCCCCCEEEEEHHHHHHHHHHHHHHHHHHHHCCCCCCC-CC
T ss_conf             69999999999999999986688748879779899999809885148874799999999999999999707888433-44


Q ss_pred             HHHHHHHHHHHHCCC------CCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             899998898873474------223899999999999999998731221000012344420258999999999999
Q gi|254780896|r  264 SENIIVISIVILGGM------TSLSKIAKATAILIGVVELCCGMNFYYFNSLLKFDCSFNMRHTTLMVIALFLVI  332 (351)
Q Consensus       264 ~~~~~~~~~vvlGG~------gs~~Ga~lGa~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~lilvl  332 (351)
                      .+.++.++++++||.      ||++|+++|+.++..+++.+....            ..+.++....+.++++.+
T Consensus       252 ~~~l~aIaAvviGG~sl~GG~G~v~Gt~lGal~l~~i~~gl~~~g------------v~~~~q~~v~G~ili~AV  314 (321)
T PRK09512        252 GYELDAIAAVVLGGTSLAGGKGRIVGTLIGALILGFLNNALNLLG------------VSSYYQMIVKAVVILLAV  314 (321)
T ss_pred             CHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCC------------CCHHHHHHHHHHHHHHHE
T ss_conf             347999999998043656980774999999999999999998819------------988999999999974314


No 17 
>PRK09478 mglC beta-methylgalactoside transporter inner membrane component; Provisional
Probab=100.00  E-value=2.1e-35  Score=232.81  Aligned_cols=278  Identities=15%  Similarity=0.114  Sum_probs=208.4

Q ss_pred             HHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHCC-----------CCCCHHHHHH
Q ss_conf             75301472379999999999999999999999984322489999999999999997204-----------5653036533
Q gi|254780896|r   29 FLGATKSQKYIDSMGIQILIYVMFAWGLSIVVGSLGLLSLNCVIAYAIGAYSYVILGSR-----------YGLSIWLLIP   97 (351)
Q Consensus        29 ~~~~~~~~~~~~~~~~~~~i~~l~alGl~li~G~~G~inl~~g~~~~~Gay~~~~l~~~-----------~g~~~~~ai~   97 (351)
                      ..|.+.+..++.++..+..+.+++|+|++++. .+|.+|++.++.+++.+..++.+...           .++|.|++++
T Consensus        32 ~~p~Fls~~Nl~~il~~~a~l~i~AlG~t~vi-i~GgiDLSvgs~~~l~~vv~a~l~~~~~~~~~~~~~~~~~~~~~ail  110 (336)
T PRK09478         32 QDPTFLSLLNLSNILTQSSVRIIIALGVAGLI-VTQGTDLSAGRQVGLAAVVAATLLQSMDNANKVFPELATMPIALVIL  110 (336)
T ss_pred             HCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH-HCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHH
T ss_conf             48887888999999999999999999999999-91787446989999999999999970665332344434554999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCH
Q ss_conf             57889889876544445432134577779998898999998555405876788577652112123476434343333100
Q gi|254780896|r   98 VSAMISGACGMIMGLPSLKFRGDYLAIATLIMSEIFQNILIKWKPITNGKAGIYVADRLYFLGTTVRSLIRFFRFPSSFV  177 (351)
Q Consensus        98 ~a~~~~a~~g~l~g~~~~rl~g~~~~i~Tl~~~~i~~~~~~~~~~~~~g~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~  177 (351)
                      ++.++++++|.++|+.+.|.|-+.+ |+|++...+.+.+..-..... +.+.+...+ +.+ ........     .....
T Consensus       111 ~~l~~g~liG~iNG~lv~~~~ip~f-IvTLgt~~i~~Gl~~~~~~~~-~~~~i~~~~-~~~-~~~~~~~~-----~~~~~  181 (336)
T PRK09478        111 IVCAIGAVIGLINGLIIAYLNVTPF-IATLGTMIIVYGINSLYYDFV-GASPISGFD-SGF-STFAQGFV-----ALGSF  181 (336)
T ss_pred             HHHHHHHHHHHHHHHHHHEECCCHH-HHHHHHHHHHHHHHHHHHCCC-CCEECCCCC-HHH-HHHHHCHH-----HCCCC
T ss_conf             9999999999998587750368659-999999999999999986378-860478877-889-99871302-----34787


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEEC
Q ss_conf             14899999999999999999999613059999999642122233420232236799999879999999999986644011
Q gi|254780896|r  178 IYEIFMYYVLLGMCFLSASIILWLRRTAISNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMAGAFFAASRDRIS  257 (351)
Q Consensus       178 ~~~~~~~~~~~~~~~~~~~l~~~l~rT~~G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgiaG~l~a~~~~~v~  257 (351)
                          ..++..+..+......++.++|||+||+++|+++|||+||.+|||++|+|..+|+++|.+||+||.+++.+.+..+
T Consensus       182 ----~ip~~~~~~~~~~~~~~~~l~~T~~Gr~lyAvG~N~~AA~~sGI~v~r~~i~~y~lsG~~aalaGil~~~r~~s~~  257 (336)
T PRK09478        182 ----RLSYITFYALIAIAFVWVLWNKTRFGKNIFAIGGNPEAAKVSGVNVALNLLMIYALSGVFYAFGGMLEAGRIGSAT  257 (336)
T ss_pred             ----CCHHHHHHHHHHHHHHHHHHHHCHHHEEEEECCCCHHHHHHHCCCCEEEEHHHHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf             ----8479999999999999999976854336346459899998828984013308998889999999999999848838


Q ss_pred             CCCCCHHHHHHHHHHHHHCC------CCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHH
Q ss_conf             35431589999889887347------422389999999999999999873122100001234442025899999999999
Q gi|254780896|r  258 PDMFKFSENIIVISIVILGG------MTSLSKIAKATAILIGVVELCCGMNFYYFNSLLKFDCSFNMRHTTLMVIALFLV  331 (351)
Q Consensus       258 p~~~~~~~~~~~~~~vvlGG------~gs~~Ga~lGa~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~lilv  331 (351)
                      |+. +-.+.++.++++++||      .||++|+++|++++..+++.+....            ..+.++....+.++++.
T Consensus       258 ~~~-G~~~el~aIaAvviGGtsl~GG~Gsv~Gt~~G~l~l~~i~ngl~llg------------v~~~~q~iv~G~ili~a  324 (336)
T PRK09478        258 NNL-GFMYELDAIAACVVGGVSFSGGVGTVIGVVTGVIIFTVINYGLTYIG------------VNPYWQYIIKGGIIIFA  324 (336)
T ss_pred             CCC-CCCHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCC------------CCHHHHHHHHHHHHHHH
T ss_conf             265-75347899999997565877996576999999999999999999829------------98899999999999999


Q ss_pred             HH
Q ss_conf             99
Q gi|254780896|r  332 IL  333 (351)
Q Consensus       332 ll  333 (351)
                      +.
T Consensus       325 V~  326 (336)
T PRK09478        325 VA  326 (336)
T ss_pred             HH
T ss_conf             99


No 18 
>PRK09699 D-allose transporter subunit; Provisional
Probab=100.00  E-value=1e-35  Score=234.80  Aligned_cols=294  Identities=15%  Similarity=0.140  Sum_probs=217.6

Q ss_pred             CCHHH--HHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHH
Q ss_conf             71116--6669999999999999999975301472379999999999999999999999984322489999999999999
Q gi|254780896|r    4 FSLRL--NKYDKILCLLAVVYPLLLFLFLGATKSQKYIDSMGIQILIYVMFAWGLSIVVGSLGLLSLNCVIAYAIGAYSY   81 (351)
Q Consensus         4 f~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~l~alGl~li~G~~G~inl~~g~~~~~Gay~~   81 (351)
                      |+.+.  +||..++.+..+. ........+.+.+.+++.+++.+..+.+++|+|++++. .+|.+|++.++.+++.++..
T Consensus        16 f~~~~f~~~~g~~~vl~~l~-~vf~~~~~~~Fls~~Nl~~il~~~a~l~i~AlG~t~Vi-i~GgiDLSvgs~~~l~~~~~   93 (325)
T PRK09699         16 FNFALFWDKYGTFFILAIIV-AIFGSLSPEYFLTTNNITQIFVQSSVTVLIGMGEFFAI-LVAGIDLSVGAILALSGMVT   93 (325)
T ss_pred             CCHHHHHHHHHHHHHHHHHH-HHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH-HHCCCCHHHHHHHHHHHHHH
T ss_conf             78999999989999999999-99999778988988999999999999999999999999-93786152999999999999


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCC
Q ss_conf             99720456530365335788988987654444543213457777999889899999855540587678857765211212
Q gi|254780896|r   82 VILGSRYGLSIWLLIPVSAMISGACGMIMGLPSLKFRGDYLAIATLIMSEIFQNILIKWKPITNGKAGIYVADRLYFLGT  161 (351)
Q Consensus        82 ~~l~~~~g~~~~~ai~~a~~~~a~~g~l~g~~~~rl~g~~~~i~Tl~~~~i~~~~~~~~~~~~~g~~gi~~~~~~~~~~~  161 (351)
                      +.+....+.|.+.+++.++++++++|.++|..+.+.|-+.+ |+|++...+.+.+....   ++| +.+...+ +.+...
T Consensus        94 ~~l~~~~~~~~~~a~l~~l~~g~~iG~iNG~lv~~~~ip~f-IvTLgt~~i~~Gl~~~~---t~g-~~i~~~~-~~~~~~  167 (325)
T PRK09699         94 AKLMLAGVDPFLAALIGGVLVGGALGAINGCLVNWTGLHPF-IITLGTNAIFRGITLVI---SDA-NSVYGFS-FDFVNF  167 (325)
T ss_pred             HHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHH-HHHHHHHHHHHHHHHHE---ECC-CCCCCCC-HHHHHH
T ss_conf             99998478619999999999999999998597775087759-99999999999888832---189-5125799-899998


Q ss_pred             CCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             34764343433331001489999999999999999999961305999999964212223342023223679999987999
Q gi|254780896|r  162 TVRSLIRFFRFPSSFVIYEIFMYYVLLGMCFLSASIILWLRRTAISNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAF  241 (351)
Q Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~rT~~G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~l  241 (351)
                      ..   ....+           .+...+..+......++.++|||+||+++|+++|||+|+..|||++|+|..+|+++|.+
T Consensus       168 ~~---~~~~g-----------iP~~~~i~~~~~~v~~~ll~~T~~Gr~lyAvG~N~~AA~~sGI~v~r~~i~~y~lsG~~  233 (325)
T PRK09699        168 FA---ASVIG-----------IPVPVIFSLIVALILWFLTTRMRLGRNIYALGGNKNSAFYSGIDVKFHILVVFIISGVC  233 (325)
T ss_pred             HC---CCCCC-----------CHHHHHHHHHHHHHHHHHHHHCCCEEEEEEECCCHHHHHHHCCCCHHEEEEHHHHHHHH
T ss_conf             62---32135-----------52999999999999999982181410344657899999884887134044338987899


Q ss_pred             HHHHHHHHHHHHHEECCCCCCHHHHHHHHHHHHHCC------CCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf             999999998664401135431589999889887347------42238999999999999999987312210000123444
Q gi|254780896|r  242 IGMAGAFFAASRDRISPDMFKFSENIIVISIVILGG------MTSLSKIAKATAILIGVVELCCGMNFYYFNSLLKFDCS  315 (351)
Q Consensus       242 AgiaG~l~a~~~~~v~p~~~~~~~~~~~~~~vvlGG------~gs~~Ga~lGa~~l~~~~~~~~~~~~~~~~~~~~~~~~  315 (351)
                      ||+||.+++.+.++.+|+. +..+.++.++++++||      .||++|+++|++++..+++.+....            .
T Consensus       234 a~lAGil~~~r~~s~~p~~-G~~~~l~aIaAvVlGGtsl~GG~Gsv~Gt~lGal~l~~i~ngl~~~g------------v  300 (325)
T PRK09699        234 AGLAGVVSTARLGAAEPLA-GMGFETYAIASAIIGGTSFFGGKGRIFSVVIGGLIIGTINNGLNILQ------------V  300 (325)
T ss_pred             HHHHHHHHHHHHCCCCCCC-CCCHHHHHHHHHHHCCCCCCCCEECHHHHHHHHHHHHHHHHHHHHCC------------C
T ss_conf             9999999999857848142-74337889999997360677997153999999999999999999819------------9


Q ss_pred             CHHHHHHHHHHHHHHHH
Q ss_conf             20258999999999999
Q gi|254780896|r  316 FNMRHTTLMVIALFLVI  332 (351)
Q Consensus       316 ~~~~~~~l~~~~lilvl  332 (351)
                      .+.++....+.++++.+
T Consensus       301 ~~~~q~~v~G~iii~aV  317 (325)
T PRK09699        301 QTYYQLVVMGGLIIAAV  317 (325)
T ss_pred             CHHHHHHHHHHHHHHHH
T ss_conf             88899999999999999


No 19 
>COG4214 XylH ABC-type xylose transport system, permease component [Carbohydrate transport and metabolism]
Probab=99.97  E-value=1.1e-29  Score=198.14  Aligned_cols=307  Identities=16%  Similarity=0.151  Sum_probs=213.4

Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHH--HHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHH
Q ss_conf             11166669999999999999999975--3014723799999999999999999999999843224899999999999999
Q gi|254780896|r    5 SLRLNKYDKILCLLAVVYPLLLFLFL--GATKSQKYIDSMGIQILIYVMFAWGLSIVVGSLGLLSLNCVIAYAIGAYSYV   82 (351)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~i~~l~alGl~li~G~~G~inl~~g~~~~~Gay~~~   82 (351)
                      +-+....+..-.+.++.+..+.|...  +.+.+++++.++..|..+-+++|+|+.++. .+|.+|++.|+..++-+-.++
T Consensus        17 ~~~~~n~r~~~ml~al~~I~lfF~~~T~g~~l~p~Nl~NL~~Q~S~i~imA~GMvlVI-v~g~IDLSVGSv~gllGaiaa   95 (394)
T COG4214          17 RLKSLNLRVYGMLIALALIMLFFQILTGGVFLSPRNLSNLLRQNSIIGILALGMVLVI-VAGEIDLSVGSVLGLLGAIAA   95 (394)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEECCCHHHHHHHHHHHHHHHHHCCEEEE-EECCCCCCHHHHHHHHHHHHH
T ss_conf             8874216799999999999999997069768523118999986469999973506788-715303227779999999999


Q ss_pred             HHHC-----CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCC
Q ss_conf             9720-----45653036533578898898765444454321345777799988989999985554058767885776521
Q gi|254780896|r   83 ILGS-----RYGLSIWLLIPVSAMISGACGMIMGLPSLKFRGDYLAIATLIMSEIFQNILIKWKPITNGKAGIYVADRLY  157 (351)
Q Consensus        83 ~l~~-----~~g~~~~~ai~~a~~~~a~~g~l~g~~~~rl~g~~~~i~Tl~~~~i~~~~~~~~~~~~~g~~gi~~~~~~~  157 (351)
                      ++..     ..|||++++++.+..+++++|...|+..-+.|-+.| |+||+-..+.+.+..-   .++| +.+.  |.+.
T Consensus        96 il~v~~~~~~~gw~~~vtii~~l~~G~liGa~~G~~iay~~vPSF-IVTLaGmLvfrGl~~~---v~~g-~ti~--P~~~  168 (394)
T COG4214          96 ILDVKWGLPWLGWPLPVTIIVTLVLGGLIGAWQGFWIAYLKVPSF-IVTLAGMLVFRGLTLG---VTGG-TTVA--PYPS  168 (394)
T ss_pred             HHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHH-HHHHHHHHHHHHHHEE---EECC-CCCC--CCCC
T ss_conf             986300465457528999999999999999988889987438559-9876889998333278---5589-4368--9980


Q ss_pred             CCCCCCCCCCCC---------------------------CCCCCCCHHHHHH---------------------HHHHHHH
Q ss_conf             121234764343---------------------------4333310014899---------------------9999999
Q gi|254780896|r  158 FLGTTVRSLIRF---------------------------FRFPSSFVIYEIF---------------------MYYVLLG  189 (351)
Q Consensus       158 ~~~~~~~~~~~~---------------------------~~~~~~~~~~~~~---------------------~~~~~~~  189 (351)
                      .+....+...+.                           ++.+..+......                     ..+..+.
T Consensus       169 ~f~~ig~g~ip~~~~~~~~~v~~~~~v~~~~r~R~~r~~~gl~~~p~~~~~~k~~~~~~~il~~v~~ln~yrGvp~~vlv  248 (394)
T COG4214         169 TFSLIGQGFLPAILGWILGLVALAAIVFAGLRGRRRRIRHGLEVPPFWAFVLKLLVIAAIILGLVYVLNSYRGVPNPVLV  248 (394)
T ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
T ss_conf             78886310256368889999999999999998888998629977965899999999999999999998412698689999


Q ss_pred             HHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEECCCCCCHHHHHHH
Q ss_conf             99999999999613059999999642122233420232236799999879999999999986644011354315899998
Q gi|254780896|r  190 MCFLSASIILWLRRTAISNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMAGAFFAASRDRISPDMFKFSENIIV  269 (351)
Q Consensus       190 ~~~~~~~l~~~l~rT~~G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgiaG~l~a~~~~~v~p~~~~~~~~~~~  269 (351)
                      ..++.....+..+||++||+++|++.|||+||.+|||++|++..+|++.|.++++||...+.+.+..+|.. +.....++
T Consensus       249 ~~vl~~~~~fvt~rT~fGR~VyAiGGN~eAA~LSGInv~r~t~~vF~~mGvl~AiAgli~taRL~aatp~A-G~g~ELda  327 (394)
T COG4214         249 LLVLLIVFTFVTTRTVFGRRVYAIGGNPEAARLSGINVERVTLLVFVIMGVLAAIAGLILTARLNAATPSA-GTGFELDA  327 (394)
T ss_pred             HHHHHHHHHHHHHHCEEEEEEEEECCCHHHHHHCCCCEEEHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC-CCCHHHHH
T ss_conf             99999999998631122048987269878898648750104689999978999999999999860578677-76415778


Q ss_pred             HHHHHHCC------CCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             89887347------4223899999999999999998731221000012344420258999999999999
Q gi|254780896|r  270 ISIVILGG------MTSLSKIAKATAILIGVVELCCGMNFYYFNSLLKFDCSFNMRHTTLMVIALFLVI  332 (351)
Q Consensus       270 ~~~vvlGG------~gs~~Ga~lGa~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~lilvl  332 (351)
                      ++++++||      .|++.|+++|++++..+++...            .......+|+.+-+.++++-.
T Consensus       328 IAA~fIGGtSlaGGvGtv~GAviGalIM~sl~nGMs------------llgv~~~~Q~iVkG~VLl~AV  384 (394)
T COG4214         328 IAACFIGGTSLAGGVGTVAGAVIGALIMGSLNNGMS------------LLGVDTDWQQIVKGAVLLLAV  384 (394)
T ss_pred             HHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHCCCE------------EECCCCCHHHHHHHHHHHHHH
T ss_conf             899874663124774269999999999998845857------------845895399999989999888


No 20 
>cd06580 TM_PBP1_transp_TpRbsC_like Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters, which are mainly involved in the uptake of branched-chain amino acids (AAs) or in the uptake of monosaccharides including ribose, galactose, and arabinose, and which generally bind type 1 PBPs. PBP-dependent ABC transporters consist of a PBP, two TMs, and two cytoplasmic ABCs, and are mainly involved in importing solutes from the environment. The solute is captured by the PBP, which delivers it to a gated translocation pathway formed by the two TMs. The two ABCs bind and hydrolyze ATP and drive the transport reaction.
Probab=99.97  E-value=1.9e-28  Score=190.59  Aligned_cols=205  Identities=20%  Similarity=0.267  Sum_probs=157.7

Q ss_pred             HHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHH
Q ss_conf             99999999999999843224899999999999999972045653036533578898898----76544445432134577
Q gi|254780896|r   48 IYVMFAWGLSIVVGSLGLLSLNCVIAYAIGAYSYVILGSRYGLSIWLLIPVSAMISGAC----GMIMGLPSLKFRGDYLA  123 (351)
Q Consensus        48 i~~l~alGl~li~G~~G~inl~~g~~~~~Gay~~~~l~~~~g~~~~~ai~~a~~~~a~~----g~l~g~~~~rl~g~~~~  123 (351)
                      ...+.++|..+.+ .+|++|+|+.+++.+|||++++.....++|.|.+.+++.+++++.    |.+.++...|++.+. .
T Consensus         3 Plll~alg~~~~~-r~G~~Nig~eG~~~~GA~~aa~~~~~~~~~~~~~~~l~~l~a~~~G~~~g~i~~~l~~~~~~~~-~   80 (234)
T cd06580           3 PLILAALGVAISF-RAGVFNIGLEGQMLLGAFAAALVALYLGLPATGSLPLGLLAAALAGALWALLPALLKAKLGVNE-V   80 (234)
T ss_pred             HHHHHHHHHHHHH-HHCCEEEHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCH-H
T ss_conf             7999999999999-9488206098899999999999999635651589999999999999999999999999968888-9


Q ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             77999889899999855540587678857765211212347643434333310014899999999999999999999613
Q gi|254780896|r  124 IATLIMSEIFQNILIKWKPITNGKAGIYVADRLYFLGTTVRSLIRFFRFPSSFVIYEIFMYYVLLGMCFLSASIILWLRR  203 (351)
Q Consensus       124 i~Tl~~~~i~~~~~~~~~~~~~g~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~r  203 (351)
                      +.|++...+......                                              +.......++...+++++|
T Consensus        81 i~tl~ln~~~~~~~~----------------------------------------------~l~~i~~~~~~~~~~~l~~  114 (234)
T cd06580          81 ISGLMLNYIALGLTS----------------------------------------------YLLLLALLLVILVWLLLYR  114 (234)
T ss_pred             HHHHHHHHHHHHHHH----------------------------------------------HHHHHHHHHHHHHHHHHHH
T ss_conf             999999999999999----------------------------------------------9999999999999999998


Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HEECCCCCCHHHHHHHHHHHHHCCCCCHH
Q ss_conf             05999999964212223342023223679999987999999999998664-40113543158999988988734742238
Q gi|254780896|r  204 TAISNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMAGAFFAASR-DRISPDMFKFSENIIVISIVILGGMTSLS  282 (351)
Q Consensus       204 T~~G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgiaG~l~a~~~-~~v~p~~~~~~~~~~~~~~vvlGG~gs~~  282 (351)
                      ||+||++||++|||++||++|+|++|+|..+|.+|+++||++|+++.... +..+|+ ++..+.++.++++++|+ +|+.
T Consensus       115 T~~G~~lravG~n~~aA~~~Gi~v~~~~~~a~~isg~laGlaG~~~~~~~~~~~~~~-~~~g~g~~aia~~ilg~-~~p~  192 (234)
T cd06580         115 TRFGLRLRAVGENPRAARYAGINVKRVRLLAMLISGALAGLAGAYLVLGVQGRFTEG-MSAGYGFIAIAVALLGR-WNPL  192 (234)
T ss_pred             CHHHHEEEEECCCHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCC-CCCCCHHHHHHHHHHHC-CCHH
T ss_conf             878745003318899998879888899999999999999999999998650257767-76661499999999979-9889


Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999999999999998731
Q gi|254780896|r  283 KIAKATAILIGVVELCCGMN  302 (351)
Q Consensus       283 Ga~lGa~~l~~~~~~~~~~~  302 (351)
                      |++.++.+...+++.....+
T Consensus       193 g~~~~al~fg~l~~g~~~lq  212 (234)
T cd06580         193 GILLAALLFGALEAGGIALQ  212 (234)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
T ss_conf             99999999999999999997


No 21 
>COG1079 Uncharacterized ABC-type transport system, permease component [General function prediction only]
Probab=99.95  E-value=5.3e-26  Score=175.68  Aligned_cols=276  Identities=17%  Similarity=0.176  Sum_probs=181.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999999999999999999984322489999999999999997204565303653357889889876544445432134
Q gi|254780896|r   41 SMGIQILIYVMFAWGLSIVVGSLGLLSLNCVIAYAIGAYSYVILGSRYGLSIWLLIPVSAMISGACGMIMGLPSLKFRGD  120 (351)
Q Consensus        41 ~~~~~~~i~~l~alGl~li~G~~G~inl~~g~~~~~Gay~~~~l~~~~g~~~~~ai~~a~~~~a~~g~l~g~~~~rl~g~  120 (351)
                      +.....-...+.|+|= +....+|++|+|..+.|.+||++.+..... ..++|++++.+.++++++++++++.+.++|.+
T Consensus        13 ~~l~~atPLllaaLG~-l~sERsGVlNIglEG~M~~gAf~~~~~~~~-t~spw~gl~~a~l~g~l~~ll~a~~ti~l~~n   90 (304)
T COG1079          13 SILRAATPLLLAALGG-LFSERSGVLNIGLEGIMLLGAFSGALFAYG-TGSPWLGLLAAALVGALFGLLHAFLTIKLRAN   90 (304)
T ss_pred             HHHHHHHHHHHHHHHH-HHHHHHCEEEECHHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             9999999999999988-898872214541314899999999999981-46689999999999999999999999761456


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             57777999889899999855540587678857765211212347643434333310014899999999999999999999
Q gi|254780896|r  121 YLAIATLIMSEIFQNILIKWKPITNGKAGIYVADRLYFLGTTVRSLIRFFRFPSSFVIYEIFMYYVLLGMCFLSASIILW  200 (351)
Q Consensus       121 ~~~i~Tl~~~~i~~~~~~~~~~~~~g~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  200 (351)
                      +. +.-++....-..+..-......+..+.. .++......   +..+..+ +..     ..+.+.......++...+|+
T Consensus        91 qi-isG~alnl~a~Glt~fl~~~~~~~~~~~-~~~~~~p~l---~~ip~~g-~~~-----~~~~~~~y~ai~lv~~~~~~  159 (304)
T COG1079          91 QI-ISGLALNLLASGLTAFLGQSIFGQPGTT-FQPIDIPGL---SDIPVIG-PAL-----FGQSPLVYLAILLVALVWYV  159 (304)
T ss_pred             CC-HHHHHHHHHHHHHHHHHHHHHHCCCCCC-CCCCCCCCC---CCCCCCC-CHH-----CCCCHHHHHHHHHHHHHHHH
T ss_conf             12-2489999999899999999986368887-776677632---3476444-110-----25579999999999999999


Q ss_pred             HHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEECCCCCCHHHHHHHHHHHHHCCCCC
Q ss_conf             61305999999964212223342023223679999987999999999998664401135431589999889887347422
Q gi|254780896|r  201 LRRTAISNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMAGAFFAASRDRISPDMFKFSENIIVISIVILGGMTS  280 (351)
Q Consensus       201 l~rT~~G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgiaG~l~a~~~~~v~p~~~~~~~~~~~~~~vvlGG~gs  280 (351)
                      +.|||+|+++||++|||++++.+|+|+.|+|..+..+|+++||++|+.++..+....-+.+.-...+.++++++.|. -+
T Consensus       160 L~rTr~GL~lravGE~P~aad~~Gi~V~r~R~~av~~sG~laGlaGa~Lsl~~~~~f~~~m~aGrGfIAlA~~ifa~-W~  238 (304)
T COG1079         160 LYRTRFGLRLRAVGENPAAADAMGINVYRYRYLAVLVSGALAGLAGAYLSLAYSGQFVEGMTAGRGFIALAAVIFAR-WR  238 (304)
T ss_pred             HHCCCCCEEEEEECCCHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHEEEEECCCCCCCCCCCCHHHHHHHHHHHC-CC
T ss_conf             73052466999826982678867987567889999999999875352135550456444666772199999999947-87


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHCC
Q ss_conf             38999999999999999987312210000123444202589999999999999858
Q gi|254780896|r  281 LSKIAKATAILIGVVELCCGMNFYYFNSLLKFDCSFNMRHTTLMVIALFLVILMRS  336 (351)
Q Consensus       281 ~~Ga~lGa~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~lilvll~rP  336 (351)
                      +++++.++.+.+..+..-...+.      .+........++.-+...+++...++-
T Consensus       239 Pl~~~~~allFg~~~~l~~~~q~------~~~~vp~~ll~~iPYi~tiivL~~~~~  288 (304)
T COG1079         239 PLGALVAALLFGFFEALAIQLQA------LGILVPSQLLQALPYIATLIVLALFSG  288 (304)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHC------CCCCCCHHHHHHHHHHHHHHHHHHHHC
T ss_conf             39999999999999999988612------466773899999869999999999844


No 22 
>COG4603 ABC-type uncharacterized transport system, permease component [General function prediction only]
Probab=99.91  E-value=1.5e-22  Score=154.76  Aligned_cols=260  Identities=17%  Similarity=0.175  Sum_probs=175.2

Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             47237999999999999999999999998432248999999999999999720456-53036533578898898765444
Q gi|254780896|r   34 KSQKYIDSMGIQILIYVMFAWGLSIVVGSLGLLSLNCVIAYAIGAYSYVILGSRYG-LSIWLLIPVSAMISGACGMIMGL  112 (351)
Q Consensus        34 ~~~~~~~~~~~~~~i~~l~alGl~li~G~~G~inl~~g~~~~~Gay~~~~l~~~~g-~~~~~ai~~a~~~~a~~g~l~g~  112 (351)
                      .+..+....+.....+.+.++|+.+-+ .+|+.|+|..+.+..|+..+.+.....+ .|.|+.+|++++.+++.|.+.+.
T Consensus        53 ~~~~~i~~~l~~~~pliltgL~~ava~-raGlfNIG~EGQ~~~Gai~a~~~~~~~~~~p~~l~~p~a~l~g~~~G~~wa~  131 (356)
T COG4603          53 GSPWSIGELLVKAAPLILTGLGVAVAF-RAGLFNIGAEGQFYAGAIAAALVALLFPDLPSWLALPLALLAGAAGGGLWAL  131 (356)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHH-HHCCEEECHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf             786789999999999999999999999-9378226717799999999999999757777479999999999999999999


Q ss_pred             HHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHH
Q ss_conf             454321---34577779998898999998555405876788577652112123476434343333100148999999999
Q gi|254780896|r  113 PSLKFR---GDYLAIATLIMSEIFQNILIKWKPITNGKAGIYVADRLYFLGTTVRSLIRFFRFPSSFVIYEIFMYYVLLG  189 (351)
Q Consensus       113 ~~~rl~---g~~~~i~Tl~~~~i~~~~~~~~~~~~~g~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  189 (351)
                      ..--+|   +..-.+.|+-+..+...+.....   .+   ....|... ......+..+....+....... ...+.++.
T Consensus       132 ipg~Lka~f~~nEVIttiMlNyIa~~l~~~lV---~~---~~~~p~~~-~~~~T~~i~~~a~lp~~~~~~~-~~~~g~li  203 (356)
T COG4603         132 IPGLLKARFGVNEVITTIMLNYIAVYLLNYLV---EG---PLRDPAGT-NFPQTRPIPDAARLPSLFLASG-RLHWGFLL  203 (356)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH---CC---CCCCCCCC-CCCCCCCCCHHHCCCCCCCCCC-HHHHHHHH
T ss_conf             99999999186299999999999999999998---07---24588767-8866825751113775542111-28999999


Q ss_pred             HHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHEECCCCCCHHHHHH
Q ss_conf             999999999996130599999996421222334202322367999998799999999999866-4401135431589999
Q gi|254780896|r  190 MCFLSASIILWLRRTAISNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMAGAFFAAS-RDRISPDMFKFSENII  268 (351)
Q Consensus       190 ~~~~~~~l~~~l~rT~~G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgiaG~l~a~~-~~~v~p~~~~~~~~~~  268 (351)
                      .+..+...+..++||++|.++|+++.||++||+.|+|++|+.+.++.+||++||++|++...- .+...+ +....+.++
T Consensus       204 al~~av~~~~ll~kT~~G~~lr~~G~sp~Aa~yaGi~~~r~i~~sm~iSGalAGLaG~~ev~G~~~~~~~-~~~~G~Gf~  282 (356)
T COG4603         204 ALAAAVLVWFLLKKTVFGYELRVVGLSPRAARYAGISVKRTIFLSMLISGALAGLAGAVEVLGAFGRLRP-SISPGYGFD  282 (356)
T ss_pred             HHHHHHHHHHHHHHCCCCEEEEEECCCHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHCCC-CCCCCCCHH
T ss_conf             9999999999999814775888724880389987987468999999999999999889998152010003-667776728


Q ss_pred             HHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             889887347422389999999999999999873122
Q gi|254780896|r  269 VISIVILGGMTSLSKIAKATAILIGVVELCCGMNFY  304 (351)
Q Consensus       269 ~~~~vvlGG~gs~~Ga~lGa~~l~~~~~~~~~~~~~  304 (351)
                      .++++.+|+ .|+.|.+..++++..+.+.....+..
T Consensus       283 gI~Vallg~-~~P~giv~asll~~~l~~G~~~~~~~  317 (356)
T COG4603         283 GIAVALLGR-NNPLGIVFASLLFGFLYIGAEAAQLN  317 (356)
T ss_pred             HHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf             999999806-88378999999999999868987640


No 23 
>COG4158 Predicted ABC-type sugar transport system, permease component [General function prediction only]
Probab=99.89  E-value=1.3e-24  Score=167.18  Aligned_cols=248  Identities=17%  Similarity=0.142  Sum_probs=190.9

Q ss_pred             HHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             97530147237999999999999999999999998432248999999999999999720456530365335788988987
Q gi|254780896|r   28 LFLGATKSQKYIDSMGIQILIYVMFAWGLSIVVGSLGLLSLNCVIAYAIGAYSYVILGSRYGLSIWLLIPVSAMISGACG  107 (351)
Q Consensus        28 ~~~~~~~~~~~~~~~~~~~~i~~l~alGl~li~G~~G~inl~~g~~~~~Gay~~~~l~~~~g~~~~~ai~~a~~~~a~~g  107 (351)
                      ...+.+.++.+++++..|..+-.+.|-|++++. .+|-+|++.|..++..|......+...+|.. +++|.+++.+...|
T Consensus        41 F~ap~flte~Nl~~i~~qasinivLAaGmTFvI-ltGGIDLSvGsIlg~tAvia~~~slmp~~a~-l~~P~AlLaGl~~G  118 (329)
T COG4158          41 FIAPNFLTESNLLNITRQASINIVLAAGMTFVI-LTGGIDLSVGSILGTTAVIAMVVSLMPGWAA-LSIPAALLAGLLLG  118 (329)
T ss_pred             HCCCCCCCHHHHHHHHHHHHHHHHHHCCCEEEE-EECCCCCCHHHHHHHHHHHHHHHHCCCCHHH-CCCHHHHHHHHHHH
T ss_conf             538521686788898998414568876977999-9477040077787799999999860775010-38519999887777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHH
Q ss_conf             65444454321345777799988989999985554058767885776521121234764343433331001489999999
Q gi|254780896|r  108 MIMGLPSLKFRGDYLAIATLIMSEIFQNILIKWKPITNGKAGIYVADRLYFLGTTVRSLIRFFRFPSSFVIYEIFMYYVL  187 (351)
Q Consensus       108 ~l~g~~~~rl~g~~~~i~Tl~~~~i~~~~~~~~~~~~~g~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  187 (351)
                      .++|+.+-|.+-+.| |+|++.--.+|....-..      +|...+.           ....|.+-.  ..+.....|..
T Consensus       119 ~~NGlLva~~~lPPF-IvTLG~~ta~RGaA~Lla------~gTTv~n-----------sn~~F~~iG--Ng~l~gvPwLV  178 (329)
T COG4158         119 LFNGLLVAYAGLPPF-IVTLGTYTALRGAAYLLA------DGTTVIN-----------SNINFEWIG--NGYLGGVPWLV  178 (329)
T ss_pred             HHHHHHHHHHCCCCE-EEECCHHHHHHHHHHHHC------CCCEEEC-----------CCCCEEEEC--CCEECCCCHHH
T ss_conf             652567866079986-998103787744574014------9837861-----------687515653--64224885378


Q ss_pred             HHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEECCCCCCHHHHH
Q ss_conf             99999999999996130599999996421222334202322367999998799999999999866440113543158999
Q gi|254780896|r  188 LGMCFLSASIILWLRRTAISNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMAGAFFAASRDRISPDMFKFSENI  267 (351)
Q Consensus       188 ~~~~~~~~~l~~~l~rT~~G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgiaG~l~a~~~~~v~p~~~~~~~~~  267 (351)
                      +..+.++...++.++||++|.+++|++.|-++||..||++..+.+..|..|+.++|++|++++.+....+.+. +..+..
T Consensus       179 vIa~~vv~~~w~iL~rT~lG~hiYAvGgN~qAARltGIkv~~vllfvY~~SgllsGLGGamsAsRlysang~l-G~~yeL  257 (329)
T COG4158         179 VIALAVVVVCWFILRRTTLGVHIYAVGGNMQAARLTGIKVWLVLLFVYGMSGLLSGLGGAMSASRLYSANGNL-GMGYEL  257 (329)
T ss_pred             HHHHHHHHHHHHHHHHHCCCEEEEEECCCHHHHHHCCCEEEEEEEHHHHHHHHHHHCCCHHHHHHHHHCCCCC-CCCEEH
T ss_conf             9999999999998823022346777255277787518723577423777888873143122477775303567-986321


Q ss_pred             HHHHHHHHC------CCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             988988734------7422389999999999999999
Q gi|254780896|r  268 IVISIVILG------GMTSLSKIAKATAILIGVVELC  298 (351)
Q Consensus       268 ~~~~~vvlG------G~gs~~Ga~lGa~~l~~~~~~~  298 (351)
                      +.+++|++|      |.|+++|.+.|++++..+++.+
T Consensus       258 DaiAAVilGGtSfvGG~GtI~GTl~GaLiIA~l~nGm  294 (329)
T COG4158         258 DAIAAVILGGTSFVGGIGTITGTLVGALIIATLNNGM  294 (329)
T ss_pred             HHHHHEEECCCCEECCCCEEEEEHHHHHHHHHHCCCE
T ss_conf             1324212257423356331331001242430011781


No 24 
>COG4120 ABC-type uncharacterized transport system, permease component [General function prediction only]
Probab=99.88  E-value=1.7e-20  Score=142.20  Aligned_cols=222  Identities=21%  Similarity=0.247  Sum_probs=160.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999999999999999999999843224899999999999999972045653036533578898898765444454321
Q gi|254780896|r   39 IDSMGIQILIYVMFAWGLSIVVGSLGLLSLNCVIAYAIGAYSYVILGSRYGLSIWLLIPVSAMISGACGMIMGLPSLKFR  118 (351)
Q Consensus        39 ~~~~~~~~~i~~l~alGl~li~G~~G~inl~~g~~~~~Gay~~~~l~~~~g~~~~~ai~~a~~~~a~~g~l~g~~~~rl~  118 (351)
                      ......|.++|+.+++|.-+.+......|+...+-|.+||-.++.+-. .|++||.+..+++..+++.|++.++...|.|
T Consensus         6 l~~aleqgLi~~~v~LGvyisFRiLnFPDLTvdGsfpLGaAv~a~li~-~G~nP~~at~~a~~AG~~aG~it~~l~~k~k   84 (293)
T COG4120           6 LIGALEQGLIFAFVALGVYISFRILNFPDLTVDGSFPLGAAVAATLIA-AGVNPFLATLVAMVAGAAAGMITGLLNVKFK   84 (293)
T ss_pred             HHHHHHHHHHHHHHHHHHHHEEEECCCCCCCCCCCCCCHHHHHHHHHH-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf             999999989999999978613554068875315751050999999998-1687799999999987898999999997222


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             34577779998898999998555405876788577652112123476434343333100148999999999999999999
Q gi|254780896|r  119 GDYLAIATLIMSEIFQNILIKWKPITNGKAGIYVADRLYFLGTTVRSLIRFFRFPSSFVIYEIFMYYVLLGMCFLSASII  198 (351)
Q Consensus       119 g~~~~i~Tl~~~~i~~~~~~~~~~~~~g~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  198 (351)
                      -+.+     -.+......+.+...      .+.+.++.+..+.+.-..    ..+............+....+..+.++.
T Consensus        85 I~~L-----LAgIL~M~alySVNL------rIMgrpNl~ll~~~ti~~----~l~~~~~~~~~~~pli~~vlvii~~~~v  149 (293)
T COG4120          85 ILTL-----LAGILTMIALYSVNL------RIMGRPNLPLLGEDTIFT----PLPFDGLLDYLLRPLILVVLVIIAKLLV  149 (293)
T ss_pred             HHHH-----HHHHHHHHHHHHHHH------HHHCCCCCCCCCCCCCCC----CCCCCCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf             8779-----999999999998889------985589965368986335----3554566225778799999999999999


Q ss_pred             HHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEECCCCCCHHHHHHHHHHHHHCC
Q ss_conf             9961305999999964212223342023223679999987999999999998664401135431589999889887347
Q gi|254780896|r  199 LWLRRTAISNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMAGAFFAASRDRISPDMFKFSENIIVISIVILGG  277 (351)
Q Consensus       199 ~~l~rT~~G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgiaG~l~a~~~~~v~p~~~~~~~~~~~~~~vvlGG  277 (351)
                      +++-+|+.|.++||.++||+.+++.|+|++++++...++|.++.+++|+++++++++.+-++ +...-+.-++.+++|-
T Consensus       150 ~~fl~t~~GlalrAtG~N~~Ma~a~Gi~t~~~~~~Gl~lSNalvAl~GAL~AQ~~GfADVsm-GiG~iVvGLAavIIGe  227 (293)
T COG4120         150 IRFLKTDLGLALRATGDNPDMARAQGINTERYTILGLALSNALVALAGALFAQTNGFADVSM-GIGTIVVGLAAVIIGE  227 (293)
T ss_pred             HHHHHCCCCCEEECCCCCHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHCC-CCCHHHHHHHHHHHHH
T ss_conf             99973453622101279877999839872568999899988899985668887436530025-7442454567999779


No 25 
>COG4211 MglC ABC-type glucose/galactose transport system, permease component [Carbohydrate transport and metabolism]
Probab=99.66  E-value=5.9e-18  Score=126.76  Aligned_cols=251  Identities=16%  Similarity=0.165  Sum_probs=168.5

Q ss_pred             HHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHCC-----------CCCCHHH
Q ss_conf             99975301472379999999999999999999999984322489999999999999997204-----------5653036
Q gi|254780896|r   26 LFLFLGATKSQKYIDSMGIQILIYVMFAWGLSIVVGSLGLLSLNCVIAYAIGAYSYVILGSR-----------YGLSIWL   94 (351)
Q Consensus        26 ~~~~~~~~~~~~~~~~~~~~~~i~~l~alGl~li~G~~G~inl~~g~~~~~Gay~~~~l~~~-----------~g~~~~~   94 (351)
                      .....|.+.+.+++.++++|...-.+.|+|..=+. .+.--|++.|-..++++-.++.+.+.           ...|...
T Consensus        29 iIv~~PtfLsl~N~~nILtQSSVR~iiAlGVAGli-vtqGTDLSaGRqVglaaVis~tlLqsm~Nin~~FPdl~~vpi~v  107 (336)
T COG4211          29 IIVQDPTFLSLRNLSNILTQSSVRIIIALGVAGLI-VTQGTDLSAGRQVGLAAVVSATLLQSMDNINKVFPDLGTVPIAV  107 (336)
T ss_pred             HHCCCCCEEEHHHHHHHHHHHHEEEEEEECCCEEE-EECCCCCCHHHHHHHHHHHHHHHHCCHHHHHHHCCCCCCCCEEE
T ss_conf             73238523540127767532121313441200278-84366642432110888869988513211555388988764020


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             53357889889876544445432134577779998898999998555405876788577652112123476434343333
Q gi|254780896|r   95 LIPVSAMISGACGMIMGLPSLKFRGDYLAIATLIMSEIFQNILIKWKPITNGKAGIYVADRLYFLGTTVRSLIRFFRFPS  174 (351)
Q Consensus        95 ai~~a~~~~a~~g~l~g~~~~rl~g~~~~i~Tl~~~~i~~~~~~~~~~~~~g~~gi~~~~~~~~~~~~~~~~~~~~~~~~  174 (351)
                      .+...+++++.+|.+.|+.+-|++-..+ |.|++...++..+    .++..+..|-+   +...+....++....+....
T Consensus       108 ~il~v~~ig~vi~l~nG~~~A~Lnv~PF-IaTlgTmiIvYGi----nsLyyd~~G~s---Pi~gfd~~~s~faqG~~~~G  179 (336)
T COG4211         108 VILIVCAIGAVIGLINGLIIAYLNVTPF-IATLGTMIIVYGI----NSLYYDFVGAS---PISGFDEGFSTFAQGFVALG  179 (336)
T ss_pred             HHHHHHHHHHHHHHHHEEEEEEEECCCH-HHHHHHEEEEEEC----CCEEECCCCCC---CCCCCCHHHHHHHCCEEEEE
T ss_conf             2356889889988731027889844606-7620017888602----11144365887---55555744676738279975


Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             10014899999999999999999999613059999999642122233420232236799999879999999999986644
Q gi|254780896|r  175 SFVIYEIFMYYVLLGMCFLSASIILWLRRTAISNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMAGAFFAASRD  254 (351)
Q Consensus       175 ~~~~~~~~~~~~~~~~~~~~~~l~~~l~rT~~G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgiaG~l~a~~~~  254 (351)
                      +. ..+    ++..-........|..-+|||+|+.+.|++.|||+|+.+|+|+.+..+..|++++.+=+.+|.+.+-+.+
T Consensus       180 s~-~~~----yi~iyA~IA~~~~W~lWNKT~fGKNifAvGGNpEAAkVSGvnV~~~l~~iyalsgvfYaFGg~lEagrig  254 (336)
T COG4211         180 SF-RLS----YITIYALIAVAFVWVLWNKTRFGKNIFAIGGNPEAAKVSGVNVFLNLLMIYALSGVFYAFGGMLEAGRIG  254 (336)
T ss_pred             EE-ECC----EEEHHHHHHHHHHHHHHCCCCCCCEEEEECCCHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCC
T ss_conf             56-502----3629999999999997521201650487559835602046023799999999998998853677516445


Q ss_pred             EECCCCCCHHHHHHHHHHHHHCCC------CCHHHHHHHHHHH
Q ss_conf             011354315899998898873474------2238999999999
Q gi|254780896|r  255 RISPDMFKFSENIIVISIVILGGM------TSLSKIAKATAIL  291 (351)
Q Consensus       255 ~v~p~~~~~~~~~~~~~~vvlGG~------gs~~Ga~lGa~~l  291 (351)
                      +.+.+. ++.+..++++++|+||.      |++.|++-|..+.
T Consensus       255 sAtnnl-GfmYElDAIAaCVvGGvSF~GGvG~v~GvvtGViIf  296 (336)
T COG4211         255 SATNNL-GFMYELDAIAACVVGGVSFSGGVGTVIGVVTGVIIF  296 (336)
T ss_pred             CCCCCC-CCEEEHHHHHHHEECCEEECCCCCEEEEEEEEEEEE
T ss_conf             543675-541323354655036557627642488899999999


No 26 
>cd06550 TM_ABC_iron-siderophores_like Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of a PBP, two TMs, and two cytoplasmic ABCs, and are mainly involved in importing solutes from the environment. The solute is captured by the PBP which delivers it to a gated translocation pathway formed by the two TMs. The TMs are bundles of alpha helices that transverse the cytoplasmic membrane multiple times. The two ABCs bind and hydrolyze ATP and drive the transport reaction. Each TM has a prominent cytoplasmic loop which contacts an ABC and represents a conserved motif. The two TMs form either a homodimer (e.g. in the case of the BtuC subunits of the Escherichia coli BtuCD vitamin B12 transporter), a heterodimer (e.g. the TroC and TroD subunits of the Treponema pallidum general transition metal 
Probab=97.29  E-value=0.011  Score=34.01  Aligned_cols=40  Identities=13%  Similarity=0.126  Sum_probs=35.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9999999642122233420232236799999879999999
Q gi|254780896|r  206 ISNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMA  245 (351)
Q Consensus       206 ~G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgia  245 (351)
                      ..|++....-|||.|+.+|+|+++.|.....+.+...+.+
T Consensus       148 ~~~~l~~l~~~~~~A~~lGi~v~~~~~~~l~l~~~~~~~~  187 (261)
T cd06550         148 LSRKLNLLTFDEDLAKSLGINVNLLRLLLLLLVALLVVAA  187 (261)
T ss_pred             HHHHHHHHHCCHHHHHHCCCCHHHHHHHHHHHHHHHHHHH
T ss_conf             9999999978989988769969999999999999999999


No 27 
>PRK10440 iron-enterobactin transporter permease; Provisional
Probab=96.88  E-value=0.027  Score=31.60  Aligned_cols=112  Identities=13%  Similarity=0.093  Sum_probs=64.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHE---ECCCCCCHHHHHHHHHHHHHCCC-CC-
Q ss_conf             99999996421222334202322367999998799999999999866440---11354315899998898873474-22-
Q gi|254780896|r  206 ISNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMAGAFFAASRDR---ISPDMFKFSENIIVISIVILGGM-TS-  280 (351)
Q Consensus       206 ~G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgiaG~l~a~~~~~---v~p~~~~~~~~~~~~~~vvlGG~-gs-  280 (351)
                      ..|++.+..-+||.|+.+|+|++|.|.....+++.+++.+=+. +-..++   +.|+.          +=-..|.. .+ 
T Consensus       210 ~~~~L~~l~lGd~~A~sLGv~v~~~r~~~l~~a~ll~a~~Va~-~G~IgFVGLi~PHi----------aR~l~g~~~~~l  278 (330)
T PRK10440        210 LVRRMRLLEMGDDTACALGVSVERSRLLLMLVAVVLTAAATAL-AGPISFIALVAPHI----------ARRLSGTARWGL  278 (330)
T ss_pred             HHHHHHHHHCCHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH-CCHHHHHHHHHHHH----------HHHHHCCCCCHH
T ss_conf             9887267633828888759879999999999999999999997-04798999759999----------999817786418


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHCC
Q ss_conf             38999999999999999987312210000123444202589999999999999858
Q gi|254780896|r  281 LSKIAKATAILIGVVELCCGMNFYYFNSLLKFDCSFNMRHTTLMVIALFLVILMRS  336 (351)
Q Consensus       281 ~~Ga~lGa~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~lilvll~rP  336 (351)
                      +.-+..|+.++...+...+....+.        +........+++.-.++.++.|-
T Consensus       279 ~~sal~Ga~lll~aD~laR~l~~p~--------eiPvGivtaliGaP~fi~Ll~r~  326 (330)
T PRK10440        279 TQAALCGALLLLAADLCAQQLFMPY--------QLPVGVVTVSLGGIYLIVLLIQE  326 (330)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHCCCC--------CCCHHHHHHHHHHHHHHHHHHHC
T ss_conf             9999999999999999997645665--------62099999999899999999622


No 28 
>PRK09535 btuC corrinoid ABC transporter permease; Reviewed
Probab=96.44  E-value=0.055  Score=29.71  Aligned_cols=109  Identities=14%  Similarity=0.084  Sum_probs=61.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEE---CCCCCCHHHHHHHHHHHHHCCCC--C
Q ss_conf             999999964212223342023223679999987999999999998664401---13543158999988988734742--2
Q gi|254780896|r  206 ISNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMAGAFFAASRDRI---SPDMFKFSENIIVISIVILGGMT--S  280 (351)
Q Consensus       206 ~G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgiaG~l~a~~~~~v---~p~~~~~~~~~~~~~~vvlGG~g--s  280 (351)
                      ..|.+.+..-.||.|+.+|+|++|.|.....+++.+++.+=.. +-..+++   .|+.          +=-..|.-.  .
T Consensus       246 ~~r~L~~L~lGde~A~sLGvnv~~~r~~~l~la~llta~~Va~-~G~IgFVGLi~PHi----------aR~l~g~~~r~l  314 (366)
T PRK09535        246 YARDLNVLLLGEEDAHTLGIEVERTKRILLAAASVVTAAAVAV-AGVIGFVGLIVPHA----------MRLLVGPDHRIL  314 (366)
T ss_pred             HHHHCCCHHCCHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH-CCHHHHHHHHHHHH----------HHHHHCCCCCHH
T ss_conf             9996420213959998789988999999999999999999993-34164698608999----------999928884349


Q ss_pred             H-HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHC
Q ss_conf             3-899999999999999998731221000012344420258999999999999985
Q gi|254780896|r  281 L-SKIAKATAILIGVVELCCGMNFYYFNSLLKFDCSFNMRHTTLMVIALFLVILMR  335 (351)
Q Consensus       281 ~-~Ga~lGa~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~lilvll~r  335 (351)
                      + .-+++|+.++...+...+. .+.         +........+++.-.++.++.|
T Consensus       315 lp~saL~Ga~lll~aD~laR~-~p~---------ElPvGivtalIG~P~fl~LL~r  360 (366)
T PRK09535        315 LPTSALAGASFLVATDTVARS-GAT---------EPPVGIITAALGAPFFLYLLRK  360 (366)
T ss_pred             HHHHHHHHHHHHHHHHHHHCC-CCC---------CCCHHHHHHHHHHHHHHHHHHH
T ss_conf             999999999999999997564-864---------4549999999989999999984


No 29 
>PRK10577 iron-hydroxamate transporter permease subunit; Provisional
Probab=95.61  E-value=0.13  Score=27.36  Aligned_cols=115  Identities=16%  Similarity=0.064  Sum_probs=59.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEECCCCCCHHHHHHHHHHHHHCCCCC----H
Q ss_conf             999999964212223342023223679999987999999999998664401135431589999889887347422----3
Q gi|254780896|r  206 ISNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMAGAFFAASRDRISPDMFKFSENIIVISIVILGGMTS----L  281 (351)
Q Consensus       206 ~G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgiaG~l~a~~~~~v~p~~~~~~~~~~~~~~vvlGG~gs----~  281 (351)
                      ..|.+....-+||.|+.+|+|++|.|.....++..+++.+=.. +-..+++.     +.  ..-++ =.++|...    +
T Consensus       213 ~~r~L~~L~LGd~~A~sLGv~v~~~r~~~l~~a~llta~aVa~-~G~IgFVG-----Li--aPhia-R~l~~~~~~~~lp  283 (666)
T PRK10577        213 LIRPLTLLGLGDDVARSLGLAVSLARLAALALAIFLSAVVVSA-VGPIGFIG-----LA--APNLA-RLLGARRLRARLL  283 (666)
T ss_pred             HHHHCCCHHCCHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH-HCHHHHHH-----HH--HHHHH-HHHHCCCCCHHHH
T ss_conf             9875782303999997779978999999999999999999994-13276888-----60--99999-9983778540799


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHCC
Q ss_conf             8999999999999999987312210000123444202589999999999999858
Q gi|254780896|r  282 SKIAKATAILIGVVELCCGMNFYYFNSLLKFDCSFNMRHTTLMVIALFLVILMRS  336 (351)
Q Consensus       282 ~Ga~lGa~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~lilvll~rP  336 (351)
                      .-++.|+.++...+...+.......       ....-...-+++.-.++.++.|-
T Consensus       284 ~s~l~Ga~lll~aD~~~r~l~~~~~-------elP~G~vTaliGaP~ll~Ll~R~  331 (666)
T PRK10577        284 LSPLIGALLLLLTDQLVLLLARVGA-------ELPTGAVTALIGAPLLLWLLPRL  331 (666)
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCC-------CCHHHHHHHHHHHHHHHHHHHHH
T ss_conf             9999999999999999986035753-------04079999998789999999973


No 30 
>pfam01032 FecCD FecCD transport family. This is a sub-family of bacterial binding protein-dependent transport systems family. This Pfam entry contains the inner components of this multicomponent transport system.
Probab=95.50  E-value=0.15  Score=27.10  Aligned_cols=89  Identities=13%  Similarity=0.092  Sum_probs=53.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEECCCCCCHHHHHHHHHHHHHCCC--CCH-H
Q ss_conf             9999999642122233420232236799999879999999999986644011354315899998898873474--223-8
Q gi|254780896|r  206 ISNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMAGAFFAASRDRISPDMFKFSENIIVISIVILGGM--TSL-S  282 (351)
Q Consensus       206 ~G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgiaG~l~a~~~~~v~p~~~~~~~~~~~~~~vvlGG~--gs~-~  282 (351)
                      .-+++....-+||.|+.+|+|++|.|.....+++.+++.+=.+ +      .|-.| ...-..-++--..|..  -.+ .
T Consensus       196 ~~~~l~~l~lG~~~A~sLGv~v~~~r~~~l~~~~ll~a~~va~-~------G~I~F-vGLi~Phiar~l~g~~~~~~l~~  267 (312)
T pfam01032       196 LARKLNLLALGDDVAKSLGVNVNRVRLLLLLLAALLTAAAVAL-V------GPIGF-VGLIVPHIARLLVGANHRRLLPL  267 (312)
T ss_pred             HHHHHHHHHCCHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH-C------CHHHH-HHHHHHHHHHHHCCCCCCCHHHH
T ss_conf             9876058874939999769989999999999999999999980-1------69998-99749999999808886418999


Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999999999999998731
Q gi|254780896|r  283 KIAKATAILIGVVELCCGMN  302 (351)
Q Consensus       283 Ga~lGa~~l~~~~~~~~~~~  302 (351)
                      -++.|+.++...+...+...
T Consensus       268 s~l~Ga~lll~aD~i~r~~~  287 (312)
T pfam01032       268 SALIGALLLLLADLLARTLL  287 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHC
T ss_conf             99999999999999997716


No 31 
>PRK09777 fecD iron-dicitrate transporter subunit FecD; Reviewed
Probab=95.28  E-value=0.17  Score=26.67  Aligned_cols=116  Identities=13%  Similarity=0.077  Sum_probs=68.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEECCCCCCHHHHHHHHHHHHHCCCCC--H-H
Q ss_conf             999999964212223342023223679999987999999999998664401135431589999889887347422--3-8
Q gi|254780896|r  206 ISNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMAGAFFAASRDRISPDMFKFSENIIVISIVILGGMTS--L-S  282 (351)
Q Consensus       206 ~G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgiaG~l~a~~~~~v~p~~~~~~~~~~~~~~vvlGG~gs--~-~  282 (351)
                      ..|++....-+||.|+.+|+|++|.|.....+++.+++.+=.+       +.|-.| ...-..-++--..|...+  + .
T Consensus       200 ~~~~l~~l~lGe~~A~sLGvnv~~~r~~~l~~~~~l~a~~va~-------vG~I~F-VGLi~PhiaR~l~g~~~~~~lp~  271 (318)
T PRK09777        200 FCRDLDLLALGDARATTLGVSVPHTRFWALLLAVALTATGVAA-------CGPISF-IGLVVPHLMRSLVGGRHRRLLPV  271 (318)
T ss_pred             HHHHHHHHHCCHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH-------CCCHHH-HHHHHHHHHHHHHCCCCCHHHHH
T ss_conf             9997143636939999779979999999999999999999980-------250524-98619999999808885418999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             9999999999999999873122100001234442025899999999999998589
Q gi|254780896|r  283 KIAKATAILIGVVELCCGMNFYYFNSLLKFDCSFNMRHTTLMVIALFLVILMRSH  337 (351)
Q Consensus       283 Ga~lGa~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~lilvll~rP~  337 (351)
                      .+..|+.++...+...+....+..        ........+++.-..+.++.|-|
T Consensus       272 s~l~Ga~lll~aD~l~R~l~~p~e--------lPvGivtaliG~P~fi~ll~R~r  318 (318)
T PRK09777        272 SALTGALLLLLADLLARIIHPPLE--------LPAGVLTAIIGAPWFVWLLVRMR  318 (318)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCC--------CHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             999999999999999966066652--------11999999998999999740379


No 32 
>PRK11228 fecC iron-dicitrate transporter permease subunit; Provisional
Probab=94.97  E-value=0.21  Score=26.12  Aligned_cols=89  Identities=10%  Similarity=0.103  Sum_probs=54.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEECCCCCCHHHHHHHHHHHHHCCC--CCH-H
Q ss_conf             9999999642122233420232236799999879999999999986644011354315899998898873474--223-8
Q gi|254780896|r  206 ISNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMAGAFFAASRDRISPDMFKFSENIIVISIVILGGM--TSL-S  282 (351)
Q Consensus       206 ~G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgiaG~l~a~~~~~v~p~~~~~~~~~~~~~~vvlGG~--gs~-~  282 (351)
                      ..|.+.+..-.||.|+.+|+|++|+|.....+++.+++.+=..       +.|-.| ...-..-++=-..|.-  ..+ .
T Consensus       205 ~~~~L~~l~lGd~~A~sLGv~v~~~r~~~l~~~~~l~a~~va~-------~G~I~F-VGLivPhiaR~l~g~~~~~~lp~  276 (323)
T PRK11228        205 LANQLNLLNLSDSTAHTLGVNLTRLRLVVNMLVLLLVGACVSV-------AGPVAF-IGLLVPHLARFWAGFDQRNVLPV  276 (323)
T ss_pred             HHHHHHHHHCCHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHC-------CCCHHH-HHHHHHHHHHHHHCCCCCCHHHH
T ss_conf             9987056745959998789979999999999999999999966-------771622-98509999999818887517999


Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999999999999998731
Q gi|254780896|r  283 KIAKATAILIGVVELCCGMN  302 (351)
Q Consensus       283 Ga~lGa~~l~~~~~~~~~~~  302 (351)
                      -++.|+.++...+...+...
T Consensus       277 sal~Ga~lll~aD~iaR~l~  296 (323)
T PRK11228        277 SMLLGATLMLLADLLARALA  296 (323)
T ss_pred             HHHHHHHHHHHHHHHHHHCC
T ss_conf             99999999999999986615


No 33 
>PRK03784 vtamin B12-transporter permease; Provisional
Probab=94.89  E-value=0.22  Score=25.99  Aligned_cols=114  Identities=15%  Similarity=0.051  Sum_probs=67.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEECCCCCCHHHHHHHHHHHHHCCCCC---HH-
Q ss_conf             99999964212223342023223679999987999999999998664401135431589999889887347422---38-
Q gi|254780896|r  207 SNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMAGAFFAASRDRISPDMFKFSENIIVISIVILGGMTS---LS-  282 (351)
Q Consensus       207 G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgiaG~l~a~~~~~v~p~~~~~~~~~~~~~~vvlGG~gs---~~-  282 (351)
                      .|++....-+||.|+.+|+|++|.|.....+++.+++.+=.. +-..+++     ++.  ..-++= .+.|..+   ++ 
T Consensus       210 ~r~L~~L~LGd~~A~~LGv~v~~~r~~~l~~a~ll~a~~Va~-~G~IgFV-----GLi--~PhiaR-~l~g~~~~~llp~  280 (330)
T PRK03784        210 GRPLNMLALGETSARQLGLPLWFWRNLLVLATGWLVGVSVAL-AGAIGFI-----GLV--IPHILR-LCGLTDHRVLLPG  280 (330)
T ss_pred             HHHCHHHHCCHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH-CCHHHHH-----HHH--HHHHHH-HHCCCCCCHHHHH
T ss_conf             865604217948898789989999999999999999999993-1158739-----962--999999-9807775059999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             9999999999999999873122100001234442025899999999999998589
Q gi|254780896|r  283 KIAKATAILIGVVELCCGMNFYYFNSLLKFDCSFNMRHTTLMVIALFLVILMRSH  337 (351)
Q Consensus       283 Ga~lGa~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~lilvll~rP~  337 (351)
                      .++.|+.++...+...+....+.        +........+++.-.++.++.|.|
T Consensus       281 sal~Ga~lll~aD~~~R~l~~p~--------elPvGivtaliG~P~fi~Ll~r~r  327 (330)
T PRK03784        281 CALAGASLLLLADIVARLALASA--------ELPIGVVTATLGAPVFIWLLLRSH  327 (330)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCC--------CCCHHHHHHHHHHHHHHHHHHHCC
T ss_conf             99999999999999985625666--------520999999998999999898445


No 34 
>PRK10441 iron-enterobactin transporter membrane protein; Provisional
Probab=94.79  E-value=0.24  Score=25.82  Aligned_cols=114  Identities=12%  Similarity=0.067  Sum_probs=63.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEECCCCCCHHHHHHHHHHHHHCCCC--CHH-
Q ss_conf             99999996421222334202322367999998799999999999866440113543158999988988734742--238-
Q gi|254780896|r  206 ISNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMAGAFFAASRDRISPDMFKFSENIIVISIVILGGMT--SLS-  282 (351)
Q Consensus       206 ~G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgiaG~l~a~~~~~v~p~~~~~~~~~~~~~~vvlGG~g--s~~-  282 (351)
                      ..|++.+..-.||.|+.+|+|++|.|.....+++.+++.+=.. +-..+++     +  .-..-++=-..|.-.  .++ 
T Consensus       213 ~~~~L~~l~lGd~~A~sLGv~v~~~r~~~l~~a~ll~a~~Va~-~G~IgFV-----G--Li~PHiaR~l~g~~~~~~lp~  284 (335)
T PRK10441        213 LSRALNSLSLGSDTATALGSRVARTQLIGLLAITVLCGSATAV-VGPIAFI-----G--LMMPHMARWLVGADHRWSLPV  284 (335)
T ss_pred             HHHHHHHHHCCHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH-CCHHHHH-----H--HHHHHHHHHHHCCCCCCHHHH
T ss_conf             9999999977969998689969999999999999999999993-7538679-----9--629999999818885408999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHCC
Q ss_conf             999999999999999987312210000123444202589999999999999858
Q gi|254780896|r  283 KIAKATAILIGVVELCCGMNFYYFNSLLKFDCSFNMRHTTLMVIALFLVILMRS  336 (351)
Q Consensus       283 Ga~lGa~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~lilvll~rP  336 (351)
                      -++.|+.++...+...+...+.+         ........+++.-.++.++.|.
T Consensus       285 sal~Ga~lll~aD~~~R~~~p~e---------iPvGiitaliG~P~fl~Ll~r~  329 (335)
T PRK10441        285 TLLATPALLLFADIIGRLLVPGE---------LRVSVVSAFIGAPVLIFLVRRK  329 (335)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCC---------CHHHHHHHHHHHHHHHHHHHHC
T ss_conf             99999999999999998756656---------1099999999899999999826


No 35 
>pfam00950 ABC-3 ABC 3 transport family.
Probab=94.13  E-value=0.34  Score=24.93  Aligned_cols=37  Identities=11%  Similarity=-0.007  Sum_probs=31.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9999999642122233420232236799999879999
Q gi|254780896|r  206 ISNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFI  242 (351)
Q Consensus       206 ~G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lA  242 (351)
                      +-|++..+.-|||-|+..|+|+++++..-..+-+...
T Consensus       144 ~~r~l~~~~fD~~~A~~~Gi~~~~~~~~~~~lial~v  180 (258)
T pfam00950       144 FWKELLLITFDPDHAKVIGLPVQFLYLLLLILLALTI  180 (258)
T ss_pred             HHHHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHHHHH
T ss_conf             9999999960899999828861378999999999999


No 36 
>COG1108 ZnuB ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]
Probab=94.03  E-value=0.35  Score=24.80  Aligned_cols=36  Identities=3%  Similarity=-0.094  Sum_probs=29.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             999999964212223342023223679999987999
Q gi|254780896|r  206 ISNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAF  241 (351)
Q Consensus       206 ~G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~l  241 (351)
                      +-|.+....-|||-|+..|+|+++++..-..+-+.-
T Consensus       153 f~r~ll~~~fD~~~A~~~Gl~v~~~~~l~~~lisl~  188 (274)
T COG1108         153 FYRELLLLTFDPEFARVLGLNVRLLHYLLLVLLALT  188 (274)
T ss_pred             HHHHHHHHHCCHHHHHHCCCCHHHHHHHHHHHHHHH
T ss_conf             999999962689999874985889999999999999


No 37 
>COG0609 FepD ABC-type Fe3+-siderophore transport system, permease component [Inorganic ion transport and metabolism]
Probab=91.01  E-value=0.9  Score=22.33  Aligned_cols=114  Identities=13%  Similarity=0.022  Sum_probs=65.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEECCCCCCHHHHHHHHHHHHHCCCC--CHH-H
Q ss_conf             9999996421222334202322367999998799999999999866440113543158999988988734742--238-9
Q gi|254780896|r  207 SNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMAGAFFAASRDRISPDMFKFSENIIVISIVILGGMT--SLS-K  283 (351)
Q Consensus       207 G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgiaG~l~a~~~~~v~p~~~~~~~~~~~~~~vvlGG~g--s~~-G  283 (351)
                      .+.+.+..-|||.|+.+|+|++|.|......++.++|.+=.+ +-..+++       ..-..-++-.+.|.--  -++ .
T Consensus       213 ~~~l~il~lgd~~A~~LGi~v~~~r~~~~i~a~llt~~~Vs~-~G~I~FV-------GLi~PHiaR~lvg~~~r~lip~s  284 (334)
T COG0609         213 SRKLNILSLGDELAKSLGINVNRLRLLLLLLASLLTAAAVSL-VGPIGFV-------GLIAPHIARLLVGNDHRYLLPLS  284 (334)
T ss_pred             HHHCCHHHCCHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH-HCHHHHH-------HHHHHHHHHHHHCCCCCEEHHHH
T ss_conf             774767544989998779878999999999999999999998-1216888-------86389999998287642217878


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHCC
Q ss_conf             99999999999999987312210000123444202589999999999999858
Q gi|254780896|r  284 IAKATAILIGVVELCCGMNFYYFNSLLKFDCSFNMRHTTLMVIALFLVILMRS  336 (351)
Q Consensus       284 a~lGa~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~lilvll~rP  336 (351)
                      ++.|+.++.......+....+        ..........+++.-..+.++.|-
T Consensus       285 ~l~Ga~lll~aD~~~R~i~~p--------~e~pvGiitaliGaP~FiyLl~r~  329 (334)
T COG0609         285 ALLGALLLLLADILARTILAP--------AEIPVGIVTALIGAPYFIYLLRKK  329 (334)
T ss_pred             HHHHHHHHHHHHHHHHHCCCC--------CCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf             999999999999999863473--------234589999999999999999986


No 38 
>PRK09543 znuB high-affinity zinc transporter membrane component; Reviewed
Probab=89.91  E-value=1.1  Score=21.75  Aligned_cols=36  Identities=14%  Similarity=0.027  Sum_probs=29.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             999999642122233420232236799999879999
Q gi|254780896|r  207 SNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFI  242 (351)
Q Consensus       207 G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lA  242 (351)
                      -|++....-|||.|+..|+|+++.+..-..+-+...
T Consensus       145 ~r~l~~~~fD~~~A~~~Gi~v~~~~~~~~~lial~v  180 (261)
T PRK09543        145 WRNLLSMTISPDLAFVDGVKLQRVKLLLMLVTALTI  180 (261)
T ss_pred             HHHHHHHHCCHHHHHHCCCCHHHHHHHHHHHHHHHH
T ss_conf             999999828999998829988999999999999999


No 39 
>COG4779 FepG ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]
Probab=72.88  E-value=5.4  Score=17.60  Aligned_cols=83  Identities=16%  Similarity=0.134  Sum_probs=51.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEECCCCCCHHHHHHHHHH--HHHCCCCCHHH
Q ss_conf             9999999642122233420232236799999879999999999986644011354315899998898--87347422389
Q gi|254780896|r  206 ISNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMAGAFFAASRDRISPDMFKFSENIIVISI--VILGGMTSLSK  283 (351)
Q Consensus       206 ~G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgiaG~l~a~~~~~v~p~~~~~~~~~~~~~~--vvlGG~gs~~G  283 (351)
                      +.|++|-..--.+.|..+|++++|.++.....+-.+++++=+.       ..|-.| .-....-++-  .=-.|.+-...
T Consensus       226 l~R~lr~lEmGDd~A~~LGV~vertRL~~ilvaV~lta~aTaa-------AGPIaF-IALaAPQiArrL~~t~gv~L~~~  297 (346)
T COG4779         226 LVRRLRLLEMGDDIACALGVSVERTRLLMILVAVALTAAATAA-------AGPIAF-IALAAPQIARRLSGTAGVSLLAA  297 (346)
T ss_pred             HHHHHHHHHHHHHHHHHCCCEEHHHHHHHHHHHHHHHHHHHHC-------CCCHHH-HHHCCHHHHHHHHCCCCCHHHHH
T ss_conf             9988888760156776517353288899999999999999973-------465345-65523699999735899305888


Q ss_pred             HHHHHHHHHHHHH
Q ss_conf             9999999999999
Q gi|254780896|r  284 IAKATAILIGVVE  296 (351)
Q Consensus       284 a~lGa~~l~~~~~  296 (351)
                      +..|+.++....-
T Consensus       298 almGa~LLlaADl  310 (346)
T COG4779         298 ALMGALLLLAADL  310 (346)
T ss_pred             HHHHHHHHHHHHH
T ss_conf             9988799999999


No 40 
>TIGR00512 aIF-2BI_fam translation initiation factor, putative, aIF-2BI family; InterPro: IPR005251   This family contains proteins designated as translation initiation factor 2B subunit 1 (alpha) and 5-methylthioribose-1-phosphate isomerase (MTNA, 5.3.1.23 from EC, ).   The delineation of this family is based in part on a discussion and neighbour-joining phylogenetic study , , of archaeal and other proteins homologous to the alpha, beta, and delta subunits of eukaryotic initiation factor 2B (eIF-2B), a five-subunit molecule that catalyzes GTP recycling for eIF-2. The archaeal proteins are related to the common ancestor of eIF-2B alpha, beta, and delta rather then specifically to any one of them, and that designation of particular archaeal members as corresponding to eIF-2B alpha or eIF-2B delta is imprecise. It has been suggested that designating the archaeal proteins as translation initiation factors remains unproven.    5-methylthioribose-1-phosphate isomerase (MTNA) participates in the methionine salvage pathway catalysing the isomerisation of 5-methylthioribose-1-phosphate to 5-methylthio ribulose-1-phosphate . The methionine salvage pathway leads to the synthesis of methionine from methylthioadenosine, the end product of the spermidine and spermine anabolism in many species..
Probab=70.55  E-value=2  Score=20.25  Aligned_cols=25  Identities=24%  Similarity=0.602  Sum_probs=16.7

Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHH
Q ss_conf             9999999972045653036533578
Q gi|254780896|r   76 IGAYSYVILGSRYGLSIWLLIPVSA  100 (351)
Q Consensus        76 ~Gay~~~~l~~~~g~~~~~ai~~a~  100 (351)
                      +|.|..+++.+++.+||+++.|+|.
T Consensus       221 IGTY~lAvlAK~h~IPFyVAAPlST  245 (306)
T TIGR00512       221 IGTYGLAVLAKAHNIPFYVAAPLST  245 (306)
T ss_pred             HHHHHHHHHHHCCCCCCEEECCCCC
T ss_conf             6678999998206988334087630


No 41 
>pfam08566 Pam17 Mitochondrial import protein Pam17. The presequence translocase-associated motor (PAM) drives the completion of preprotein translocation into the mitochondrial matrix. The Pam17 subunit is required for formation of a stable complex between cochaperones Pam16 and Pam18 and promotes the association of Pam16-Pam18 with the presequence translocase. Mitochondria lacking Pam17 are selectively impaired in the import of matrix proteins.
Probab=69.78  E-value=6.3  Score=17.18  Aligned_cols=24  Identities=25%  Similarity=0.671  Sum_probs=12.5

Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             565303653357889889876544
Q gi|254780896|r   88 YGLSIWLLIPVSAMISGACGMIMG  111 (351)
Q Consensus        88 ~g~~~~~ai~~a~~~~a~~g~l~g  111 (351)
                      +|++|.+.+-++.+.++.+|.++|
T Consensus        73 ~GlDP~~~~g~~~~a~~~~G~L~G   96 (174)
T pfam08566        73 MGLDPFMVLGLATIACGALGWLLG   96 (174)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHC
T ss_conf             385889999999999742557516


No 42 
>TIGR01148 mtrC tetrahydromethanopterin S-methyltransferase, subunit C; InterPro: IPR005865    This model describes the N5-methyltetrahydromethanopterin: coenzyme M methyltransferase subunit C in methanogenic archaea. This methyltranferase is a membrane-associated enzyme complex that uses methyl-transfer reaction to drive a sodium-ion pump. Archaea have evolved energy-yielding pathways marked by one-carbon biochemistry featuring novel cofactors and enzymes. This transferase is involved in the transfer of a methyl group from N5-methyltetrahydromethanopterin to coenzyme M. In an accompanying reaction, methane is produced by two-electron reduction of the methyl moiety in methyl-coenzyme M by another enzyme methyl-coenzyme M reductase.; GO: 0030269 tetrahydromethanopterin S-methyltransferase activity, 0015948 methanogenesis, 0016021 integral to membrane.
Probab=67.37  E-value=7.1  Score=16.87  Aligned_cols=55  Identities=16%  Similarity=0.204  Sum_probs=40.2

Q ss_pred             HCHHHHHHHHHHH--HHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             4322489999999--999999997204565303653357889889876544445432
Q gi|254780896|r   63 LGLLSLNCVIAYA--IGAYSYVILGSRYGLSIWLLIPVSAMISGACGMIMGLPSLKF  117 (351)
Q Consensus        63 ~G~inl~~g~~~~--~Gay~~~~l~~~~g~~~~~ai~~a~~~~a~~g~l~g~~~~rl  117 (351)
                      +|+.|.|.-+.=+  +++-....+..+..+|-+.+-.++.++++++|.++|....|.
T Consensus        73 TGVPSIG~~~LG~G~lAa~~G~a~~~~~~~Pa~a~pi~a~vvaaiiG~v~G~L~~kv  129 (276)
T TIGR01148        73 TGVPSIGMMSLGMGILAAVAGLALGGVVTLPAIAAPIIALVVAAIIGAVVGVLAKKV  129 (276)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf             886227788877889999999881564014125787999999999999998734641


No 43 
>TIGR01113 mtrE tetrahydromethanopterin S-methyltransferase, subunit E; InterPro: IPR005780    This model describes N5-methyltetrahydromethanopterin: coenzyme M methyltransferase subunit E in methanogenic archaea. This methyltranferase is a membrane-associated enzyme complex that uses methyl-transfer reaction to drive sodium-ion pump.  5-methyl-5,6,7,8-tetrahydromethanopterin + 2-mercaptoethanesulphonate = 5,6,7,8-tetrahydromethanopterin + 2-(methylthio)ethanesulphonate.  Archaea have evolved energy-yielding pathways marked by one-carbon biochemistry featuring novel cofactors and enzymes. This transferase (encoded by subunit A) is involved in the transfer of 'methyl' group from N5-methyltetrahydromethanopterin to coenzyme M. In an accompanying reaction, methane is produced by two-electron reduction of methyl-coenzyme M by another enzyme, methyl-coenzyme M reductase.; GO: 0030269 tetrahydromethanopterin S-methyltransferase activity, 0006814 sodium ion transport, 0005737 cytoplasm, 0012506 vesicle membrane.
Probab=65.27  E-value=7.8  Score=16.62  Aligned_cols=44  Identities=23%  Similarity=0.280  Sum_probs=36.9

Q ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             89999999999999997204565303653357889889876544
Q gi|254780896|r   68 LNCVIAYAIGAYSYVILGSRYGLSIWLLIPVSAMISGACGMIMG  111 (351)
Q Consensus        68 l~~g~~~~~Gay~~~~l~~~~g~~~~~ai~~a~~~~a~~g~l~g  111 (351)
                      .+++-+.++++-.++.+.+++++|+.+|+.++..+++.+.....
T Consensus        56 vsY~l~c~iaG~va~v~m~~~~Lp~~~Ala~Ga~iaA~vH~~yA   99 (298)
T TIGR01113        56 VSYGLYCAIAGAVAYVLMSEFGLPPILALAVGAVIAALVHLAYA   99 (298)
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             23678887899999999973273699999999999999999999


No 44 
>TIGR00886 2A0108 nitrite transporter; InterPro: IPR004737    This family represents nitrate/nitrite antiporters in bacteria, fungi, algae and marine diatoms. Nitrate transporters in Escherichia coli are involved in excretion of nitrite produced by the dissimilatory reduction of nitrate. NarK is polytopic membrane protein with 12 transmembrane domains which is involved in nitrate uptake and nitrite excretion and is thought to function as a nitrate/nitrite antiporter. At low concentrations of nitrate, NarK mediates the electrogenic excretion of nitrite rather than nitrate/nitrite exchange. This process prevents intracellular accumulation of toxic levels of nitrite and allows further detoxification in the periplasm through the action of nitrite reductase .   In the opportunistic fungal pathogen Aspergillus fumigatus the nitrate transporter crnA clusters with nitrite reductase (niiA) and nitrate reductase (niaD). NiaD, niiA and crnA are induced by nitrate and repressed by ammonium at the transcriptional level . In Hebeloma cylindrosporum the nitrate transporter polypeptide (NRT2) is characterised by 12 transmembrane domains and presents both a long putative intracellular loop and a short C-terminal tail, two structural features which distinguish fungal high-affinity transporters from their plant homologues. Transcription is repressed by ammonium and strongly stimulated by nitrate but also by organic nitrogen or nitrogen deficiency.  ; GO: 0015103 inorganic anion transmembrane transporter activity, 0015698 inorganic anion transport, 0016021 integral to membrane.
Probab=53.95  E-value=12  Score=15.42  Aligned_cols=17  Identities=41%  Similarity=0.677  Sum_probs=5.9

Q ss_pred             HHHHHHHHHHHHHHHHH
Q ss_conf             98799999999999866
Q gi|254780896|r  236 AVSSAFIGMAGAFFAAS  252 (351)
Q Consensus       236 ~is~~lAgiaG~l~a~~  252 (351)
                      .+-+.++|++|+-++.-
T Consensus       101 ~~~rlf~Gi~Gg~Fa~~  117 (472)
T TIGR00886       101 LLLRLFIGIAGGSFASC  117 (472)
T ss_pred             HHHHHHHHHHHHHHHHH
T ss_conf             99999996755468876


No 45 
>pfam12263 DUF3611 Protein of unknown function (DUF3611). This family of proteins is found in bacteria and eukaryotes. Proteins in this family are typically between 180 and 205 amino acids in length. There are two completely conserved residues (W and G) that may be functionally important.
Probab=49.91  E-value=14  Score=15.03  Aligned_cols=40  Identities=18%  Similarity=0.277  Sum_probs=26.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCHHHHHHHHH--HHHHHHHHH
Q ss_conf             9999999999999999996130599999996--421222334
Q gi|254780896|r  183 MYYVLLGMCFLSASIILWLRRTAISNAWRTI--RDNQKAFFS  222 (351)
Q Consensus       183 ~~~~~~~~~~~~~~l~~~l~rT~~G~~lrAv--~~n~~aA~~  222 (351)
                      .++...+++.+..-++|..+.+|+|+++|.-  ...|..++.
T Consensus        59 l~la~~glv~l~~Si~~~fry~rlg~~L~~~~~~~rP~r~~~  100 (183)
T pfam12263        59 LFLTIIGLIALGFSIFFAFRYTRLGRRLRNPDPAKRPSRADT  100 (183)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHH
T ss_conf             999999999999999999889999998555888789988999


No 46 
>COG4059 MtrE Tetrahydromethanopterin S-methyltransferase, subunit E [Coenzyme metabolism]
Probab=46.57  E-value=16  Score=14.71  Aligned_cols=42  Identities=17%  Similarity=0.192  Sum_probs=32.4

Q ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             899999999999999972045653036533578898898765
Q gi|254780896|r   68 LNCVIAYAIGAYSYVILGSRYGLSIWLLIPVSAMISGACGMI  109 (351)
Q Consensus        68 l~~g~~~~~Gay~~~~l~~~~g~~~~~ai~~a~~~~a~~g~l  109 (351)
                      .+.+-+.++++-.++.+.+++++|+..++.++..+++.+...
T Consensus        62 vsy~l~~avagtVa~vlm~~~~L~~l~Al~lGa~iaA~vH~~  103 (304)
T COG4059          62 VSYGLYCAVAGTVAYVLMSEFGLPPLFALALGAGIAACVHGT  103 (304)
T ss_pred             CCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH
T ss_conf             510111346578899999872873999999987899999888


No 47 
>TIGR02069 cyanophycinase cyanophycinase; InterPro: IPR011811    This entry describes both cytosolic and extracellular cyanophycinases. The former are part of a system in many Cyanobacteria and a few other species of generating and later utilizing a storage polymer for nitrogen, carbon, and energy, called cyanophycin. The latter are found in species such as Pseudomonas anguilliseptica that can use external cyanophycin. The polymer has a backbone of L-aspartic acid, with most Asp side chain carboxyl groups attached to L-arginine.; GO: 0016787 hydrolase activity, 0044260 cellular macromolecule metabolic process.
Probab=45.36  E-value=11  Score=15.71  Aligned_cols=30  Identities=17%  Similarity=0.111  Sum_probs=22.5

Q ss_pred             HHHHHHHHHHHHHHHCCHHHHHHHHHHHHH
Q ss_conf             999999999999961305999999964212
Q gi|254780896|r  188 LGMCFLSASIILWLRRTAISNAWRTIRDNQ  217 (351)
Q Consensus       188 ~~~~~~~~~l~~~l~rT~~G~~lrAv~~n~  217 (351)
                      ++++--++.=..|=+|-|+||-++|+.+||
T Consensus       190 LGl~~~v~iDQHF~~RgRlGRLl~Ai~~~P  219 (297)
T TIGR02069       190 LGLLKDVLIDQHFAQRGRLGRLLSAIAQNP  219 (297)
T ss_pred             CCCCCCCEEEECHHHCCHHHHHHHHHHHCC
T ss_conf             731687437306110224899999997378


No 48 
>pfam03137 OATP Organic Anion Transporter Polypeptide (OATP) family. This family consists of several eukaryotic Organic-Anion-Transporting Polypeptides (OATPs). Several have been identified mostly in human and rat. Different OATPs vary in tissue distribution and substrate specificity. Since the numbering of different OATPs in particular species was based originally on the order of discovery, similarly numbered OATPs in humans and rats did not necessarily correspond in function, tissue distribution and substrate specificity (in spite of the name, some OATPs also transport organic cations and neutral molecules). Thus, Tamai et al. initiated the current scheme of using digits for rat OATPs and letters for human ones. Prostaglandin transporter (PGT) proteins are also considered to be OATP family members. In addition, the methotrexate transporter OATK is closely related to OATPs. This family also includes several predicted proteins from Caenorhabditis elegans and Drosophila melanogaster. Thi
Probab=41.29  E-value=19  Score=14.21  Aligned_cols=16  Identities=13%  Similarity=0.260  Sum_probs=8.4

Q ss_pred             HHHHH-HHHHHHHHHHH
Q ss_conf             89999-99999999999
Q gi|254780896|r   68 LNCVI-AYAIGAYSYVI   83 (351)
Q Consensus        68 l~~g~-~~~~Gay~~~~   83 (351)
                      +|.|. .+++|....++
T Consensus        71 ig~G~~l~~lG~~l~al   87 (582)
T pfam03137        71 IGIGLLIMALGSLLTAL   87 (582)
T ss_pred             EEHHHHHHHHHHHHHHH
T ss_conf             00989999999999976


No 49 
>COG4061 MtrC Tetrahydromethanopterin S-methyltransferase, subunit C [Coenzyme metabolism]
Probab=39.75  E-value=21  Score=14.07  Aligned_cols=45  Identities=13%  Similarity=0.203  Sum_probs=30.6

Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             999720456530365335788988987654444543213457777
Q gi|254780896|r   81 YVILGSRYGLSIWLLIPVSAMISGACGMIMGLPSLKFRGDYLAIA  125 (351)
Q Consensus        81 ~~~l~~~~g~~~~~ai~~a~~~~a~~g~l~g~~~~rl~g~~~~i~  125 (351)
                      .......+.+|-|.+-.++..+++++|.++|....|.-+.-.+|.
T Consensus        88 ~gla~~~ftlp~laapIi~~I~aaviG~vvgvL~~kvv~MkIPIm  132 (262)
T COG4061          88 AGLAIPYFTLPALAAPIIGLIVAAVIGAVVGVLTVKVVGMKIPIM  132 (262)
T ss_pred             HHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHH
T ss_conf             986232466268888899999999999999875133102577389


No 50 
>pfam05957 DUF883 Bacterial protein of unknown function (DUF883). This family consists of several hypothetical bacterial proteins of unknown function.
Probab=38.61  E-value=21  Score=13.96  Aligned_cols=23  Identities=13%  Similarity=0.320  Sum_probs=14.4

Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             65303653357889889876544
Q gi|254780896|r   89 GLSIWLLIPVSAMISGACGMIMG  111 (351)
Q Consensus        89 g~~~~~ai~~a~~~~a~~g~l~g  111 (351)
                      .-+||-++-++..+|.++|++++
T Consensus        70 ~~~Pw~svgiAagvG~llG~Ll~   92 (94)
T pfam05957        70 HENPWQAVGIAAGVGLLLGLLLA   92 (94)
T ss_pred             HHCCHHHHHHHHHHHHHHHHHHH
T ss_conf             87929999999999999999982


No 51 
>COG4575 ElaB Uncharacterized conserved protein [Function unknown]
Probab=37.18  E-value=23  Score=13.82  Aligned_cols=24  Identities=17%  Similarity=0.295  Sum_probs=16.1

Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             565303653357889889876544
Q gi|254780896|r   88 YGLSIWLLIPVSAMISGACGMIMG  111 (351)
Q Consensus        88 ~g~~~~~ai~~a~~~~a~~g~l~g  111 (351)
                      .+-+||-++-++..+|.++|++++
T Consensus        79 V~e~PWq~VGvaAaVGlllGlLls  102 (104)
T COG4575          79 VRENPWQGVGVAAAVGLLLGLLLS  102 (104)
T ss_pred             HHCCCCHHHHHHHHHHHHHHHHHH
T ss_conf             872883388999999999999980


No 52 
>KOG3385 consensus
Probab=37.08  E-value=22  Score=13.84  Aligned_cols=27  Identities=22%  Similarity=0.256  Sum_probs=23.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             421222334202322367999998799
Q gi|254780896|r  214 RDNQKAFFSLNTTIIFAKLSAFAVSSA  240 (351)
Q Consensus       214 ~~n~~aA~~~Ginv~~~~~~af~is~~  240 (351)
                      +||+++++.++=.|++.|..++-|+-=
T Consensus        32 ~ENee~~e~L~~kV~aLKsLs~dIg~E   58 (118)
T KOG3385          32 RENEEAAESLQQKVKALKSLSLDIGDE   58 (118)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             535999999999999999988774220


No 53 
>PRK11677 cytochrome d ubiquinol oxidase subunit III; Provisional
Probab=34.61  E-value=25  Score=13.57  Aligned_cols=23  Identities=9%  Similarity=0.117  Sum_probs=16.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             03653357889889876544445
Q gi|254780896|r   92 IWLLIPVSAMISGACGMIMGLPS  114 (351)
Q Consensus        92 ~~~ai~~a~~~~a~~g~l~g~~~  114 (351)
                      .|+...+++++|.++|++.++..
T Consensus         2 ~W~~ali~lvvGiiIG~~~~R~~   24 (134)
T PRK11677          2 TWEYALIGLVVGIIIGAVAMRFG   24 (134)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHC
T ss_conf             28999999999999999999981


No 54 
>PRK10404 hypothetical protein; Provisional
Probab=33.31  E-value=26  Score=13.44  Aligned_cols=23  Identities=22%  Similarity=0.329  Sum_probs=14.1

Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             65303653357889889876544
Q gi|254780896|r   89 GLSIWLLIPVSAMISGACGMIMG  111 (351)
Q Consensus        89 g~~~~~ai~~a~~~~a~~g~l~g  111 (351)
                      .-+||-++-++..+|.++|+++.
T Consensus        77 hdnPW~aVGiaA~vGlvlGlLl~   99 (101)
T PRK10404         77 HEKPWQGIGVGAAVGLVLGLLLA   99 (101)
T ss_pred             HCCCCHHHHHHHHHHHHHHHHHH
T ss_conf             84972999999999999999983


No 55 
>KOG2447 consensus
Probab=31.63  E-value=28  Score=13.27  Aligned_cols=72  Identities=19%  Similarity=0.222  Sum_probs=35.6

Q ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             43333100148999999999999999999996130599999996421222334202322367999998799999999999
Q gi|254780896|r  170 FRFPSSFVIYEIFMYYVLLGMCFLSASIILWLRRTAISNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMAGAFF  249 (351)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~rT~~G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgiaG~l~  249 (351)
                      |+.+...........+..+++.-+..++..|.+                    +|+|++-.-...+..-+..+|++|++.
T Consensus       188 Fr~PeKRp~~~lS~iFt~iiv~pll~Llv~W~k--------------------lg~Nv~n~pss~~s~~~Fh~gi~g~~v  247 (287)
T KOG2447         188 FRAPEKRPAKPLSDIFTGIIVSPLLGLLVLWLK--------------------LGANVSNFPSSPTSTLGFHAGIAGILV  247 (287)
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH--------------------HHHHHCCCCCCCCHHHHHHHHHHHHHH
T ss_conf             349976765236777889999999999999998--------------------645540577787411114457989999


Q ss_pred             HHHHHEECCCCC
Q ss_conf             866440113543
Q gi|254780896|r  250 AASRDRISPDMF  261 (351)
Q Consensus       250 a~~~~~v~p~~~  261 (351)
                      -...-..+-++|
T Consensus       248 L~f~yWlqlsmF  259 (287)
T KOG2447         248 LFFVYWLQLSMF  259 (287)
T ss_pred             HHHHHHHHHHHH
T ss_conf             999999887899


No 56 
>PRK10132 hypothetical protein; Provisional
Probab=29.62  E-value=30  Score=13.06  Aligned_cols=21  Identities=14%  Similarity=0.262  Sum_probs=11.1

Q ss_pred             CCHHHHHHHHHHHHHHHHHHH
Q ss_conf             530365335788988987654
Q gi|254780896|r   90 LSIWLLIPVSAMISGACGMIM  110 (351)
Q Consensus        90 ~~~~~ai~~a~~~~a~~g~l~  110 (351)
                      -+||-++-++..+|.++|+++
T Consensus        84 enPW~sVGigAAVGvvlG~LL  104 (108)
T PRK10132         84 ERPWCSVGTAAAVGIFIGALL  104 (108)
T ss_pred             CCCCHHHHHHHHHHHHHHHHH
T ss_conf             489504769999999999999


No 57 
>COG2252 Xanthine/uracil/vitamin C permease [Nucleotide transport and    metabolism]
Probab=29.17  E-value=31  Score=13.01  Aligned_cols=27  Identities=19%  Similarity=0.188  Sum_probs=12.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCCCH
Q ss_conf             248999999999999999720456530
Q gi|254780896|r   66 LSLNCVIAYAIGAYSYVILGSRYGLSI   92 (351)
Q Consensus        66 inl~~g~~~~~Gay~~~~l~~~~g~~~   92 (351)
                      .-++.+-=|++-||.++......++++
T Consensus        75 ~P~alapgmglnAfFaftvv~~~gi~w  101 (436)
T COG2252          75 LPIALAPGMGLNAFFAFTVVLGMGLSW  101 (436)
T ss_pred             CCHHHCCHHHHHHHHHHHHHHHCCCCH
T ss_conf             716644356699999999998569969


No 58 
>TIGR00739 yajC preprotein translocase, YajC subunit; InterPro: IPR003849   This entry describes proteins of unknown function..
Probab=29.03  E-value=31  Score=13.00  Aligned_cols=15  Identities=13%  Similarity=0.707  Sum_probs=7.7

Q ss_pred             HHHHHHHHHHHHCCC
Q ss_conf             999999999998589
Q gi|254780896|r  323 LMVIALFLVILMRSH  337 (351)
Q Consensus       323 l~~~~lilvll~rP~  337 (351)
                      +...+++.++++|||
T Consensus        10 v~~~~~FYFl~~RPQ   24 (86)
T TIGR00739        10 VLIFLIFYFLIIRPQ   24 (86)
T ss_pred             HHHHHHHHHHHCCHH
T ss_conf             999999999704977


No 59 
>PRK12277 50S ribosomal protein L13e; Provisional
Probab=26.38  E-value=25  Score=13.52  Aligned_cols=25  Identities=12%  Similarity=-0.027  Sum_probs=21.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9999642122233420232236799
Q gi|254780896|r  209 AWRTIRDNQKAFFSLNTTIIFAKLS  233 (351)
Q Consensus       209 ~lrAv~~n~~aA~~~Ginv~~~~~~  233 (351)
                      .++|++-|.+-|+.+||.++.-+-.
T Consensus        39 ELkaaGl~~~~Ar~lGI~VD~RRk~   63 (84)
T PRK12277         39 ELEAVGLDVKKARKLGLRIDKRRKT   63 (84)
T ss_pred             HHHHCCCCHHHHHHCCCCCCCCCCC
T ss_conf             9998289999998718601452355


No 60 
>COG0182 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]
Probab=25.57  E-value=26  Score=13.46  Aligned_cols=11  Identities=9%  Similarity=0.163  Sum_probs=3.6

Q ss_pred             HHHHHHHHHHH
Q ss_conf             42122233420
Q gi|254780896|r  214 RDNQKAFFSLN  224 (351)
Q Consensus       214 ~~n~~aA~~~G  224 (351)
                      .||-++-+.+|
T Consensus       130 ~ED~e~n~~iG  140 (346)
T COG0182         130 EEDLEANRAIG  140 (346)
T ss_pred             HHHHHHHHHHH
T ss_conf             99999999999


No 61 
>TIGR01478 STEVOR variant surface antigen, stevor family; InterPro: IPR006374   Malaria is still a major cause of mortality in many areas of the world. Plasmodium falciparum causes the most severe human form of the disease and is responsible for most fatalities. Severe cases of malaria can occur when the parasite invades and then proliferates within red blood cell erythrocytes. The parasite produces many variant antigenic proteins, encoded by multigene families, which are present on the surface of the infected erythrocyte and play important roles in virulence. A crucial survival mechanism for the malaria parasite is its ability to evade the immune response by switching these variant surface antigens. The high virulence of P. falciparum relative to other malarial parasites is in large part due to the fact that in this organism many of these surface antigens mediate the binding of infected erythrocytes to the vascular endothelium (cytoadherence) and non-infected erythrocytes (rosetting). This can lead to the accumulation of infected cells in the vasculature of a variety of organs, blocking the blood flow and reducing the oxygen supply. Clinical symptoms of severe infection can include fever, progressive anaemia, multi-organ dysfunction and coma. For more information see .   This entry represents the stevor (short for "subtelomeric variable open reading frame") family of predicted variant surface antigens. This is the third largest variant surface antigen family in P. falciparum, with 33 genes identified in the genome of this parasite . The function of these proteins is not known, but they are expressed during several stages of the parasite life-cycle and may play a variety of roles in parasite survival and infection ..
Probab=23.56  E-value=39  Score=12.39  Aligned_cols=29  Identities=21%  Similarity=0.216  Sum_probs=15.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHCCH
Q ss_conf             01489999999999999999999961305
Q gi|254780896|r  177 VIYEIFMYYVLLGMCFLSASIILWLRRTA  205 (351)
Q Consensus       177 ~~~~~~~~~~~~~~~~~~~~l~~~l~rT~  205 (351)
                      ..+.....+.+++.++++.+-+|++||-|
T Consensus       274 ~PyGIAAlVLi~L~V~LIiLYIWLYrRRK  302 (315)
T TIGR01478       274 LPYGIAALVLIILTVVLIILYIWLYRRRK  302 (315)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf             13589999999999999999888856403


No 62 
>PTZ00270 variable surface protein Vir32; Provisional
Probab=22.97  E-value=20  Score=14.11  Aligned_cols=28  Identities=21%  Similarity=0.113  Sum_probs=17.8

Q ss_pred             HHHHHHHHHHHHHHHHCCHHHHHHHHHH
Q ss_conf             9999999999999961305999999964
Q gi|254780896|r  187 LLGMCFLSASIILWLRRTAISNAWRTIR  214 (351)
Q Consensus       187 ~~~~~~~~~~l~~~l~rT~~G~~lrAv~  214 (351)
                      ++++++....--..+|.||+|+++|--.
T Consensus       275 lLGVV~TsmTSGALYrfTPlG~~irn~~  302 (333)
T PTZ00270        275 LLGVVATSMTSGALYKFTPLGRMLRNGF  302 (333)
T ss_pred             EEEEEHHHHHCHHHHHCCCHHHHHHHCC
T ss_conf             4321002210003653275189988504


No 63 
>PRK10490 sensor protein KdpD; Provisional
Probab=22.13  E-value=41  Score=12.21  Aligned_cols=19  Identities=11%  Similarity=0.326  Sum_probs=10.4

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q ss_conf             9999999999999999999
Q gi|254780896|r   43 GIQILIYVMFAWGLSIVVG   61 (351)
Q Consensus        43 ~~~~~i~~l~alGl~li~G   61 (351)
                      ....++|.+..+...+.+|
T Consensus       426 aNivmlYLL~Vv~vAl~~G  444 (895)
T PRK10490        426 ANLVMLYLLGVVVIALFYG  444 (895)
T ss_pred             HHHHHHHHHHHHHHHHHHC
T ss_conf             1499999999999999946


No 64 
>COG4605 CeuC ABC-type enterochelin transport system, permease component [Inorganic ion transport and metabolism]
Probab=21.70  E-value=42  Score=12.16  Aligned_cols=42  Identities=5%  Similarity=0.074  Sum_probs=33.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             999996421222334202322367999998799999999999
Q gi|254780896|r  208 NAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMAGAFF  249 (351)
Q Consensus       208 ~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgiaG~l~  249 (351)
                      +.+--..-.+|.|..+|+|.+|.....-.+-+.+.+++-++-
T Consensus       198 ~~LDVl~LgRd~AinLGi~y~k~~~~lL~ivavLvsvSTALV  239 (316)
T COG4605         198 KVLDVLSLGRDTAINLGIDYEKVTKILLLIVAVLVSVSTALV  239 (316)
T ss_pred             HHCCHHHCCHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             750263337666765186268878899999999999999884


No 65 
>COG4854 Predicted membrane protein [Function unknown]
Probab=21.47  E-value=43  Score=12.13  Aligned_cols=41  Identities=12%  Similarity=0.212  Sum_probs=26.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99996421222334202322367999998799999999999866
Q gi|254780896|r  209 AWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMAGAFFAAS  252 (351)
Q Consensus       209 ~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgiaG~l~a~~  252 (351)
                      +.+-+-|||..-+..-...+| ...+|.+|.+++|..  +.+..
T Consensus        51 Rv~~vvEDER~lrvse~aSr~-TiqV~~is~Al~gav--l~a~k   91 (126)
T COG4854          51 RVDEVVEDERTLRVSERASRR-TIQVFSISAALGGAV--LLALK   91 (126)
T ss_pred             HHHHHHHHHHHHHHHHHHHHE-EEEEEEEHHHHHHHH--HHHHC
T ss_conf             999885258898888753002-578888469888899--99726


No 66 
>COG3763 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.36  E-value=45  Score=11.99  Aligned_cols=25  Identities=28%  Similarity=0.530  Sum_probs=14.0

Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             30365335788988987654444543
Q gi|254780896|r   91 SIWLLIPVSAMISGACGMIMGLPSLK  116 (351)
Q Consensus        91 ~~~~ai~~a~~~~a~~g~l~g~~~~r  116 (351)
                      +.|+++ +.+.++.++|++.|+...|
T Consensus         2 ~l~lai-l~ivl~ll~G~~~G~fiar   26 (71)
T COG3763           2 SLWLAI-LLIVLALLAGLIGGFFIAR   26 (71)
T ss_pred             HHHHHH-HHHHHHHHHHHHHHHHHHH
T ss_conf             028999-9999999999999999999


Done!