Query         537021.9.peg.788_1
Match_columns 270
No_of_seqs    139 out of 2893
Neff          9.1 
Searched_HMMs 39220
Date          Wed May 25 04:40:38 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i peg_788.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 TIGR02212 lolCE lipoprotein re 100.0       0       0  432.3  13.8  263    6-270     1-267 (414)
  2 COG4591 LolE ABC-type transpor 100.0       0       0  363.0  17.6  264    3-270     1-267 (408)
  3 PRK11146 outer membrane-specif 100.0       0       0  358.0  19.7  264    5-270     1-265 (412)
  4 PRK10814 outer membrane-specif 100.0       0       0  346.0  18.8  260    3-270     1-262 (396)
  5 TIGR02213 lolE_release lipopro 100.0       0       0  333.1   5.2  262    6-269     1-268 (416)
  6 PRK10535 macrolide transporter  99.9 7.2E-22 1.8E-26  143.2  15.6  232    8-262   257-512 (648)
  7 TIGR03434 ADOP Acidobacterial   99.3 8.5E-11 2.2E-15   80.4  11.3  212    8-246     4-236 (803)
  8 COG3127 Predicted ABC-type tra  98.7 5.9E-06 1.5E-10   53.0  16.4  222    6-255     5-239 (829)
  9 COG0577 SalY ABC-type antimicr  98.5 3.2E-05 8.1E-10   48.8  17.1  229   29-266     4-277 (419)
 10 TIGR01185 devC DevC protein; I  98.4 3.1E-06 7.9E-11   54.6   9.3  221   11-260     3-244 (381)
 11 COG3127 Predicted ABC-type tra  97.8  0.0012 3.1E-08   39.9  13.3  228    5-266   452-702 (829)
 12 TIGR03434 ADOP Acidobacterial   97.8  0.0026 6.7E-08   38.0  16.4  169   80-267   478-673 (803)
 13 PRK11026 ftsX cell division pr  94.8    0.11 2.8E-06   28.8   6.2   93    5-105    13-106 (309)
 14 COG2177 FtsX Cell division pro  86.4     2.3 5.9E-05   21.3   7.0   89    5-101     6-95  (297)
 15 TIGR01553 formate-DH-alph form  80.4     1.4 3.5E-05   22.6   2.5   42  152-193   948-990 (1043)
 16 PRK10549 signal transduction h  77.4     5.1 0.00013   19.3   5.8   31   29-59     15-45  (467)
 17 TIGR01462 greA transcription e  72.5     2.7 6.8E-05   20.9   2.2   90   81-177    52-147 (155)
 18 pfam11688 DUF3285 Protein of u  71.5     7.3 0.00019   18.5   4.3   33    9-41      8-41  (45)
 19 TIGR02609 doc_partner putative  67.4     2.7 6.9E-05   20.9   1.3   25  147-171     9-33  (77)
 20 COG4771 FepA Outer membrane re  67.4       2 5.1E-05   21.6   0.6   60   51-125    41-101 (699)
 21 TIGR01425 SRP54_euk signal rec  64.5    0.81 2.1E-05   23.9  -1.8   65  202-267   299-365 (453)
 22 cd02792 MopB_CT_Formate-Dh-Na-  62.8     7.1 0.00018   18.5   2.7   54  148-216    35-88  (122)
 23 TIGR01439 lp_hng_hel_AbrB tran  58.2     5.2 0.00013   19.3   1.4   26  147-172     7-32  (44)
 24 cd02789 MopB_CT_FmdC-FwdD The   54.7      12 0.00031   17.2   2.8   57  149-220    32-89  (106)
 25 PRK01885 greB transcription el  53.8      11 0.00027   17.6   2.4   47  137-194   109-156 (159)
 26 PRK00226 greA transcription el  51.5      13 0.00033   17.1   2.5   47  137-194   108-155 (157)
 27 cd00508 MopB_CT_Fdh-Nap-like T  50.0     9.6 0.00025   17.8   1.6   53  147-214    34-86  (120)
 28 pfam04014 SpoVT_AbrB SpoVT / A  46.5      10 0.00027   17.6   1.4   26  147-172     6-31  (47)
 29 TIGR01941 nqrF NADH:ubiquinone  45.7     9.4 0.00024   17.9   1.0   23  156-178   256-278 (425)
 30 cd02775 MopB_CT Molybdopterin-  44.4      13 0.00033   17.1   1.6   54  148-216    23-76  (101)
 31 cd02790 MopB_CT_Formate-Dh_H F  41.9      15 0.00038   16.7   1.6   52  148-214    35-86  (116)
 32 TIGR01398 FlhA flagellar biosy  39.2      27  0.0007   15.2   5.8   67   25-93    201-278 (713)
 33 PRK05892 nucleoside diphosphat  39.1      21 0.00054   15.8   2.0   28  150-177   122-150 (161)
 34 TIGR03243 arg_catab_AOST argin  38.7      17 0.00043   16.4   1.5   15  203-217   308-322 (335)
 35 cd02780 MopB_CT_Tetrathionate_  38.1      20  0.0005   16.0   1.7   31  147-177    29-59  (143)
 36 cd02778 MopB_CT_Thiosulfate-R-  38.0      20 0.00051   16.0   1.7   30  148-177    30-59  (123)
 37 cd02781 MopB_CT_Acetylene-hydr  37.8      20 0.00052   16.0   1.8   31  147-177    32-62  (130)
 38 cd02786 MopB_CT_3 The MopB_CT_  37.6      21 0.00053   15.9   1.8   57  147-218    30-86  (116)
 39 TIGR03245 arg_AOST_alph argini  37.6      18 0.00046   16.2   1.5   12  206-217   312-323 (336)
 40 COG2336 MazE Growth regulator   37.6      18 0.00046   16.2   1.5   27  147-173    11-37  (82)
 41 TIGR03244 arg_catab_AstA argin  37.2      18 0.00047   16.2   1.5   15  203-217   309-323 (336)
 42 pfam11374 DUF3176 Protein of u  36.9      30 0.00076   15.0   3.8   18   29-47     24-41  (111)
 43 cd02784 MopB_CT_PHLH The MopB_  36.9      22 0.00055   15.8   1.8   28  147-174    37-64  (137)
 44 cd02791 MopB_CT_Nitrate-R-NapA  36.4      20 0.00052   15.9   1.6   54  148-216    35-88  (122)
 45 pfam01568 Molydop_binding Moly  36.0      21 0.00054   15.9   1.6   53  149-216    31-83  (110)
 46 PRK10456 arginine succinyltran  34.9      21 0.00054   15.8   1.5   17  202-218   309-325 (344)
 47 pfam01272 GreA_GreB Transcript  34.2      24 0.00062   15.5   1.7   28  149-176    39-67  (77)
 48 PRK11347 antitoxin ChpS; Provi  32.6      28 0.00072   15.1   1.8   46  147-195    11-56  (83)
 49 pfam04958 AstA Arginine N-succ  32.0      27 0.00069   15.2   1.6   12  206-217   314-325 (338)
 50 COG2002 AbrB Regulators of sta  31.0      27 0.00069   15.2   1.5   27  146-172    12-38  (89)
 51 PRK11465 hypothetical protein;  30.8      14 0.00036   16.8   0.0   75  162-248   574-653 (741)
 52 cd02783 MopB_CT_2 The MopB_CT_  30.3      32 0.00082   14.8   1.8   32  147-178    31-62  (156)
 53 PRK13657 cyclic beta-1,2-gluca  29.9      39   0.001   14.3   3.8   19  159-177   355-373 (585)
 54 TIGR00439 ftsX putative protei  29.9      39   0.001   14.3   6.3   75   28-105    34-110 (314)
 55 TIGR02066 dsrB sulfite reducta  29.6      40   0.001   14.3   4.1   41  207-247    41-91  (366)
 56 cd02782 MopB_CT_1 The MopB_CT_  28.9      36 0.00091   14.6   1.8   32  147-178    32-63  (129)
 57 TIGR00959 ffh signal recogniti  28.6      15 0.00037   16.8  -0.2   60  202-262   286-345 (439)
 58 PRK08221 anaerobic sulfite red  28.4      41   0.001   14.2   2.1   30  151-180    67-96  (263)
 59 cd02794 MopB_CT_DmsA-EC The Mo  28.3      36 0.00091   14.6   1.7   31  148-178    30-60  (121)
 60 cd02785 MopB_CT_4 The MopB_CT_  28.1      35  0.0009   14.6   1.7   31  147-177    31-61  (124)
 61 PRK09798 antitoxin MazE; Provi  27.3      31 0.00079   14.9   1.3   29  147-175    12-40  (82)
 62 cd02788 MopB_CT_NDH-1_NuoG2-N7  26.9      37 0.00095   14.4   1.6   30  148-177    29-58  (96)
 63 cd02779 MopB_CT_Arsenite-Ox Th  26.8      38 0.00096   14.4   1.6   50  149-213    34-83  (115)
 64 cd02777 MopB_CT_DMSOR-like The  25.8      44  0.0011   14.0   1.8   31  148-178    34-64  (127)
 65 cd02793 MopB_CT_DMSOR-BSOR-TMA  25.0      47  0.0012   13.9   1.9   31  148-178    33-63  (129)
 66 TIGR02160 PA_CoA_Oxy5 phenylac  23.9      36 0.00092   14.5   1.1   31  154-184    78-108 (371)
 67 TIGR01393 lepA GTP-binding pro  23.8      30 0.00076   15.0   0.7   43  154-197   262-304 (598)
 68 TIGR02624 rhamnu_1P_ald rhamnu  23.4      40   0.001   14.3   1.2   28  186-216   201-233 (273)
 69 cd07047 BMC_PduB_repeat1 1,2-p  22.0      56  0.0014   13.5   3.9   89  161-249     5-108 (134)
 70 PRK05753 nucleoside diphosphat  20.7      59  0.0015   13.3   2.4   37  149-194    88-125 (135)

No 1  
>TIGR02212 lolCE lipoprotein releasing system, transmembrane protein, LolC/E family; InterPro: IPR011925    This entry describes the LolC protein, and its paralog LolE found in some species. These proteins are homologous to permease proteins of ABC transporters. In some species, two paralogs occur, designated LolC and LolE. In others, a single form is found and tends to be designated LolC .; GO: 0006810 transport, 0009276 1-2nm peptidoglycan-based cell wall, 0016021 integral to membrane.
Probab=100.00  E-value=0  Score=432.26  Aligned_cols=263  Identities=35%  Similarity=0.598  Sum_probs=251.5

Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEECCCC-CCCCHHHHH
Q ss_conf             4799999987522554546899999999999999999999999987699999631110245300000000-012136665
Q 537021.9.peg.7    6 RFEVIVAWRYLFSNRKNAFISIASFISFIGVMIGVMALIVVMSVMNGFREDMIKRVLGINGHVVIQQKYY-PLVDYQFIA   84 (270)
Q Consensus         6 ~~~~~iA~R~l~~~k~r~~~~~is~ls~lgI~igv~~li~~lsv~~G~~~~i~~~i~~~~~~i~i~~~~~-~~~~~~~~~   84 (270)
                      ++|++||+||+|+|||.+|+++||.+|++||+||||+||++||||||||.++.++++++.||+.++.... +..+|+++.
T Consensus         1 ~~~l~Ig~RY~RAk~~n~F~s~I~~~S~iGI~LGVaaLIvVlSVMNGFe~eL~~riLg~~PH~~~~~~~~~~~~~~~~~~   80 (414)
T TIGR02212         1 PLSLFIGLRYLRAKRRNRFVSFISLFSIIGIALGVAALIVVLSVMNGFERELRQRILGVIPHAIIESKQNAPISDWQELL   80 (414)
T ss_pred             CCHHHHHHHHHHHHHCCCCEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEECCCEEEECCCCCCCCCHHHHH
T ss_conf             92367877777752058864511688999999988886666666666799882074101261888347898998989999


Q ss_pred             HHHHCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCC-CCCCCCHHHHHHHHHCC
Q ss_conf             55422641034665420011111222332210111243100000120011002775421111-23421013454554213
Q 537021.9.peg.7   85 NRLDFIPDVIKVLPFVSGQAFVSGLSSGGSGVLVRGISNSDFSYLQNSFSRFYGNVSNDFDR-GKGVIIGKDLARNLGIS  163 (270)
Q Consensus        85 ~~l~~~~~V~~~~p~i~~~~~i~~~~~~~~~v~i~Gv~~~~~~~~~~~~~~~~~~~~~~~~~-~~~iiiG~~lA~~L~l~  163 (270)
                      +.++++|+|.+++|++++++++.+ +...+++.++||+|+++++.....+....+.+..+.. .+.|+||+++|++||++
T Consensus        81 ~~~~~~pgv~~aaP~v~~~~lv~~-~~~~~~~~V~Gv~~~~~~~~~~~~~~~~~g~~~~f~~G~~~iiiG~~lA~~LgV~  159 (414)
T TIGR02212        81 ETIEKNPGVKAAAPIVSGQALVQS-AGKVSGVQVRGVDPSDEDKLSAISNNVKQGALKKFKPGEYNIIIGEQLAEKLGVS  159 (414)
T ss_pred             HHHHHCCCCEEEEEEEEEEEEEEE-CCCEEEEEEECCCCHHHHHHHHHHHHCCCCCCCCCCCCCCEEEEHHHHHHHCCCC
T ss_conf             999728980688546641489982-7834599985566033454555320102455445568852788715889845899


Q ss_pred             CCCEEEECCCC-CCCCCCCCCCCCCCCCCCEEEEEECCCCCCCEEEEEHHHHHHHCCCC-CCEEEEEEEECCHHHHHHHH
Q ss_conf             33202311344-21000122110000122102331024455516898548899971899-87107999956988999999
Q 537021.9.peg.7  164 IGDKINILSPY-GDVTPMGMGIRSKSYTVLGMFRMRFPDYDNGMVYMSLQEAQLYFNLE-NAVSGIEVFVKDPDAIEKTH  241 (270)
Q Consensus       164 vGD~i~l~~~~-~~~~~~~~~~~~~~f~V~GI~~sg~~~~D~~~v~~~l~~~q~l~~~~-~~~~~i~i~l~d~~~~~~~~  241 (270)
                      +||+|++++|+ .+.++.|..||.|+|+|+|+|++|++|+|.+.+++|+++||++++.+ +.++++++|++||++++++.
T Consensus       160 ~GD~~~li~p~~~~~t~~G~~P~~k~f~V~giF~~gm~e~D~~~~l~p~~dA~~f~~~~~~~v~g~~lk~~Dp~~a~~l~  239 (414)
T TIGR02212       160 VGDKVTLISPENSNVTPFGEIPRQKRFTVIGIFSTGMGEVDGYLALMPLEDAQRFLRYGPDQVTGLRLKLDDPFQADALA  239 (414)
T ss_pred             CCCEEEEEECCCCCCCEEECCCEEEEEEEEEEEEECCHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCHHHHH
T ss_conf             89779999828975210001450466899999970110320566750189999860899763306899823865315689


Q ss_pred             HHHHHHCCCCEEEEEHHHHHHHHHHHHCC
Q ss_conf             99998619985999689988989998609
Q 537021.9.peg.7  242 ENIVRILGNGVVVIDWQQRYQIFFSCYES  270 (270)
Q Consensus       242 ~~i~~~l~~~~~v~~w~e~~~~lf~ai~~  270 (270)
                      +++.+.++ ...++||+++|++||+|+|.
T Consensus       240 ~~~~~~~~-~~~~~dW~~~~g~~F~A~~~  267 (414)
T TIGR02212       240 QQVQPELG-ELYVRDWRDQNGELFSAIQM  267 (414)
T ss_pred             HHHHHHHC-CEEEECHHHHHHHHHHHHHH
T ss_conf             99988604-24320056653558999999


No 2  
>COG4591 LolE ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]
Probab=100.00  E-value=0  Score=363.04  Aligned_cols=264  Identities=36%  Similarity=0.637  Sum_probs=238.5

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEECCCCCCCCHHH
Q ss_conf             42347999999875225545468999999999999999999999999876999996311102453000000000121366
Q 537021.9.peg.7    3 IFSRFEVIVAWRYLFSNRKNAFISIASFISFIGVMIGVMALIVVMSVMNGFREDMIKRVLGINGHVVIQQKYYPLVDYQF   82 (270)
Q Consensus         3 m~~~~~~~iA~R~l~~~k~r~~~~~is~ls~lgI~igv~~li~~lsv~~G~~~~i~~~i~~~~~~i~i~~~~~~~~~~~~   82 (270)
                      |+++++++|||||+|++|+ +++++++++|.+||++||++|++++|+||||++++.+++++..||+++++.+.+..+|++
T Consensus         1 m~~~~~~~ia~rylr~rk~-~~~s~i~~~s~~GI~lgV~~LIv~lsvmnGf~~el~~~il~~~pH~~i~~~~~~~~~~~~   79 (408)
T COG4591           1 MFMPLELFIALRYLRARKR-RFISIISALSLIGIALGVAVLIVVLSVMNGFQKELENRILGVNPHVQITPEDGPIDDYRE   79 (408)
T ss_pred             CCCCHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEECCCCCCCCHHH
T ss_conf             9975589999999996221-177899999999999889999999998856799998434134676899558788743589


Q ss_pred             HHHHHHCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCC-CCCCCCCHHHHHHHHH
Q ss_conf             655542264103466542001111122233221011124310000012001100277542111-1234210134545542
Q 537021.9.peg.7   83 IANRLDFIPDVIKVLPFVSGQAFVSGLSSGGSGVLVRGISNSDFSYLQNSFSRFYGNVSNDFD-RGKGVIIGKDLARNLG  161 (270)
Q Consensus        83 ~~~~l~~~~~V~~~~p~i~~~~~i~~~~~~~~~v~i~Gv~~~~~~~~~~~~~~~~~~~~~~~~-~~~~iiiG~~lA~~L~  161 (270)
                      ..+.+++.|+|.+++|++++++++.+ ++...++.++||+|+++++ .............++. ...+|+||+.+|++||
T Consensus        80 ~~~~i~~~~~v~~~~P~~~~~~l~~~-~~~~~~~~v~Gv~p~~~~~-~~i~~~~~~~~~~~~~~g~~~iilG~~LA~~Lg  157 (408)
T COG4591          80 LIKLILKNPGVKAASPYIEGQALLQS-GNNSSGVLVRGVDPKDEDK-SAISSFLKDGSEDDLKPGEFGIILGSGLAEKLG  157 (408)
T ss_pred             HHHHHHCCCCCCEECCEEEEEEEEEC-CCCCCEEEEEEECCCCCHH-HHHHHHHHHCCCCCCCCCCCCEEECHHHHHHCC
T ss_conf             99998438575023345778899974-8753205898645520005-678887420133445678972896089998719


Q ss_pred             CCCCCEEEECCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCCEEEEEHHHHHHHCCCC-CCEEEEEEEECCHHHHHHH
Q ss_conf             133320231134421000122110000122102331024455516898548899971899-8710799995698899999
Q 537021.9.peg.7  162 ISIGDKINILSPYGDVTPMGMGIRSKSYTVLGMFRMRFPDYDNGMVYMSLQEAQLYFNLE-NAVSGIEVFVKDPDAIEKT  240 (270)
Q Consensus       162 l~vGD~i~l~~~~~~~~~~~~~~~~~~f~V~GI~~sg~~~~D~~~v~~~l~~~q~l~~~~-~~~~~i~i~l~d~~~~~~~  240 (270)
                      +++||++++++|.++. +.+..|+.++|+|+|+|++|.+|+|+.++|+|++++|++++.+ +.++++.++++||++++++
T Consensus       158 v~~GD~v~li~p~~~~-~~g~~p~~~~f~V~Gif~tG~~e~D~~~~~~~L~~aq~l~~~~~~~v~~i~v~l~dp~~a~~~  236 (408)
T COG4591         158 VRVGDKVTLITPESNT-PFGRGPRQKRFTVVGIFSTGLSELDESLAYIPLEDAQNLFNLPKGVVTGIRLKLKDPFNAEEL  236 (408)
T ss_pred             CCCCCEEEEEEECCCC-CCCCCCCEEEEEEEEEEECCCHHHHHHHHHHCHHHHHHHHCCCCCCEEEEEEEECCCCHHHHH
T ss_conf             9879889999516877-656675138999999996085555179888169989998558988446899991792243999


Q ss_pred             HHHHHHH-CCCCEEEEEHHHHHHHHHHHHCC
Q ss_conf             9999986-19985999689988989998609
Q 537021.9.peg.7  241 HENIVRI-LGNGVVVIDWQQRYQIFFSCYES  270 (270)
Q Consensus       241 ~~~i~~~-l~~~~~v~~w~e~~~~lf~ai~~  270 (270)
                      ++.+.+. .++++.+.||+|+|+++|+|++.
T Consensus       237 ~~~~~~~~~~~~~~~~~W~e~n~~~~~al~~  267 (408)
T COG4591         237 KRKLEIELLPQGLKAKDWREQNGEFFSALRL  267 (408)
T ss_pred             HHHHHHHCCCCCEEEECHHHHHHHHHHHHHH
T ss_conf             9998742368874895179970799999999


No 3  
>PRK11146 outer membrane-specific lipoprotein transporter subunit LolE; Provisional
Probab=100.00  E-value=0  Score=358.00  Aligned_cols=264  Identities=22%  Similarity=0.385  Sum_probs=241.0

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEECCCCCCCCHHHHH
Q ss_conf             34799999987522554546899999999999999999999999987699999631110245300000000012136665
Q 537021.9.peg.7    5 SRFEVIVAWRYLFSNRKNAFISIASFISFIGVMIGVMALIVVMSVMNGFREDMIKRVLGINGHVVIQQKYYPLVDYQFIA   84 (270)
Q Consensus         5 ~~~~~~iA~R~l~~~k~r~~~~~is~ls~lgI~igv~~li~~lsv~~G~~~~i~~~i~~~~~~i~i~~~~~~~~~~~~~~   84 (270)
                      +++||||||||++++|+.++++++|++|++||++||++|++++|+||||++++.+++++..||+.+++.+.++.+++++.
T Consensus         1 M~~~~fIA~Ryl~~~k~~~~is~is~lS~lGIaigv~~livvlSv~nGf~~~l~~~i~~~~ph~~i~~~~~~~~~~~~~~   80 (412)
T PRK11146          1 MPLSLLIGLRFSRGRRRGGMVSLISVISTIGIALGVAVLIVGLSAMNGFERELNNRILAVVPHGEIEAVNQPWTNWQEAL   80 (412)
T ss_pred             CCHHHHHHHHHCCCCCCCCEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHH
T ss_conf             96799999998332567972439999999999999999999999997589999999827157689982898876659999


Q ss_pred             HHHHCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCC-CCCCCCCCHHHHHHHHHCC
Q ss_conf             554226410346654200111112223322101112431000001200110027754211-1123421013454554213
Q 537021.9.peg.7   85 NRLDFIPDVIKVLPFVSGQAFVSGLSSGGSGVLVRGISNSDFSYLQNSFSRFYGNVSNDF-DRGKGVIIGKDLARNLGIS  163 (270)
Q Consensus        85 ~~l~~~~~V~~~~p~i~~~~~i~~~~~~~~~v~i~Gv~~~~~~~~~~~~~~~~~~~~~~~-~~~~~iiiG~~lA~~L~l~  163 (270)
                      +.+++.|+|.+++|++++++++.+ ++...++.++||||+++..+........++.+..+ ...++++||+.+|++|+++
T Consensus        81 ~~l~~~~~V~~~~p~i~~~~li~~-~~~~~~v~l~Gvd~~~~~~~~~~~~~i~~g~~~~~~~~~~~iiIG~~lA~~L~l~  159 (412)
T PRK11146         81 ARVQKVPGIAAAAPYVNFTGLVEN-GAKLKAVQVKGVDPQQEQQVSALPSFVQNDAWQNFKAGQQQIILGKGVADALKVK  159 (412)
T ss_pred             HHHHCCCCCEEEEEEEEEEEEEEC-CCCEEEEEEEEECHHHHHHHHHHHHHHHCCCHHHCCCCCCEEEECHHHHHHCCCC
T ss_conf             998629995288766445578842-8713457997107677655546778763585433047897499748999875999


Q ss_pred             CCCEEEECCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCCEEEEEHHHHHHHCCCCCCEEEEEEEECCHHHHHHHHHH
Q ss_conf             33202311344210001221100001221023310244555168985488999718998710799995698899999999
Q 537021.9.peg.7  164 IGDKINILSPYGDVTPMGMGIRSKSYTVLGMFRMRFPDYDNGMVYMSLQEAQLYFNLENAVSGIEVFVKDPDAIEKTHEN  243 (270)
Q Consensus       164 vGD~i~l~~~~~~~~~~~~~~~~~~f~V~GI~~sg~~~~D~~~v~~~l~~~q~l~~~~~~~~~i~i~l~d~~~~~~~~~~  243 (270)
                      +||++++++|+.........|+.++|+|+|+|++| .++|++++|+|++++|++++.++.+++++++++|+.++++++++
T Consensus       160 ~Gd~v~l~~p~~~~~~~~~~p~~~~~~V~Gif~~~-~~~D~~~v~~~l~~aq~l~~~~~~~~~i~i~l~d~~~~~~~~~~  238 (412)
T PRK11146        160 QGDWVTLMIPNSNPDHKLLQPKRVRLQVAGILQLS-GQLDHSLALIPLADAQQYLDMGDSVTGIALKVTDVFNANKLVRD  238 (412)
T ss_pred             CCCEEEEEECCCCCCCCCCCCCEEEEEEEEEEECC-CCCCCCEEEEEHHHHHHHHCCCCCCCEEEEEECCHHHHHHHHHH
T ss_conf             79878999227877765567613789999998247-75565158977999999857888862599993687568999999


Q ss_pred             HHHHCCCCEEEEEHHHHHHHHHHHHCC
Q ss_conf             998619985999689988989998609
Q 537021.9.peg.7  244 IVRILGNGVVVIDWQQRYQIFFSCYES  270 (270)
Q Consensus       244 i~~~l~~~~~v~~w~e~~~~lf~ai~~  270 (270)
                      +.+.++..+.++||+|+|+.+|+|+++
T Consensus       239 ~~~~~~~~~~~~tw~~~~~~l~~~i~~  265 (412)
T PRK11146        239 AGEVTNSYVYIKSWIGTYGYMYRDIQM  265 (412)
T ss_pred             HHHHCCCCEEEEEHHHHHHHHHHHHHH
T ss_conf             998648881896699989999999999


No 4  
>PRK10814 outer membrane-specific lipoprotein transporter subunit LolC; Provisional
Probab=100.00  E-value=0  Score=346.02  Aligned_cols=260  Identities=22%  Similarity=0.423  Sum_probs=225.7

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEECCCCCCCCHHH
Q ss_conf             42347999999875225545468999999999999999999999999876999996311102453000000000121366
Q 537021.9.peg.7    3 IFSRFEVIVAWRYLFSNRKNAFISIASFISFIGVMIGVMALIVVMSVMNGFREDMIKRVLGINGHVVIQQKYYPLVDYQF   82 (270)
Q Consensus         3 m~~~~~~~iA~R~l~~~k~r~~~~~is~ls~lgI~igv~~li~~lsv~~G~~~~i~~~i~~~~~~i~i~~~~~~~~~~~~   82 (270)
                      ||++++||||+||+|++|+++|++++|++|++||++|||+|++++||||||++++.+++++++||+.+++.++. .+++.
T Consensus         1 m~~~~~~fIA~RYl~~kk~~~~~~~is~iSilGI~iGvaaLivvlSV~nGf~~~i~~~i~~~~phi~i~~~~g~-~~~~~   79 (396)
T PRK10814          1 MYQPVALFIGLRYMRGRAADRFGRFVSWLSTIGITLGVMALVTVLSVMNGFERELQNNILGLMPQAILSSEHGS-LNPQQ   79 (396)
T ss_pred             CCCCHHHHHHHHHCCCCCCCCEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEECCCCC-CCHHH
T ss_conf             98619999999975446778723799999999999999999999999972899999998585688899658998-89899


Q ss_pred             HHHHHHCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHC
Q ss_conf             65554226410346654200111112223322101112431000001200110027754211112342101345455421
Q 537021.9.peg.7   83 IANRLDFIPDVIKVLPFVSGQAFVSGLSSGGSGVLVRGISNSDFSYLQNSFSRFYGNVSNDFDRGKGVIIGKDLARNLGI  162 (270)
Q Consensus        83 ~~~~l~~~~~V~~~~p~i~~~~~i~~~~~~~~~v~i~Gv~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiiG~~lA~~L~l  162 (270)
                      ....+.+.++|..++|++++++++.+ ++...++.++|+||++.+.+....  ..+.......+.++++||+++|++|++
T Consensus        80 ~~~~~~~~~~v~~~sp~i~~~~~l~~-~~~~~~~~l~Gvd~~~~~~l~~~~--~~~~~~~~~~~~~~iiiG~~lA~~L~v  156 (396)
T PRK10814         80 LPESAVKLDGVNRVAPLTTGDVVLQS-ARSVAVGVMLGIDPAQKDPLTPYL--VNVKQTDLEPGKYNVILGEQLAGQLGV  156 (396)
T ss_pred             HHHHHHHCCCCCEEEEEEECCCEEEC-CCCEEEEEEEEECHHHHHHHHHHH--HCCCHHHCCCCCCCEEECHHHHHHCCC
T ss_conf             89998708786268666531301313-785147999987678765788988--507365403899728985899986399


Q ss_pred             CCCCEEEECCCCCC-CCCCCCCCCCCCCCCCEEEEEECCCCCCCEEEEEHHHHHHHCCCC-CCEEEEEEEECCHHHHHHH
Q ss_conf             33320231134421-000122110000122102331024455516898548899971899-8710799995698899999
Q 537021.9.peg.7  163 SIGDKINILSPYGD-VTPMGMGIRSKSYTVLGMFRMRFPDYDNGMVYMSLQEAQLYFNLE-NAVSGIEVFVKDPDAIEKT  240 (270)
Q Consensus       163 ~vGD~i~l~~~~~~-~~~~~~~~~~~~f~V~GI~~sg~~~~D~~~v~~~l~~~q~l~~~~-~~~~~i~i~l~d~~~~~~~  240 (270)
                      ++||++++++|... .++.+..|+.+.|+|+|+|++| .|+|++++|+|++++|++++.+ +.+++++++++||.+++++
T Consensus       157 ~~Gd~i~l~~p~~~~~~~~g~~p~~~~f~V~GiF~~g-~e~D~~~v~~~l~~a~~ll~~~~~~is~i~i~l~d~~~~~~~  235 (396)
T PRK10814        157 NRGDQIRLMVPSASQFTPMGRIPSQRLFNVIGTFAAN-SEVDGYQMLVNIQDASRLMRYPAGNITGWRLWLDEPLKVDSL  235 (396)
T ss_pred             CCCCEEEEEECCCCCCCCCCCCCCEEEEEEEEEEECC-CCCCCEEEEECHHHHHHHHCCCCCCEEEEEEEECCHHHHHHH
T ss_conf             8798899993688766756668633789999986226-633460799649999998466878714899995787668999


Q ss_pred             HHHHHHHCCCCEEEEEHHHHHHHHHHHHCC
Q ss_conf             999998619985999689988989998609
Q 537021.9.peg.7  241 HENIVRILGNGVVVIDWQQRYQIFFSCYES  270 (270)
Q Consensus       241 ~~~i~~~l~~~~~v~~w~e~~~~lf~ai~~  270 (270)
                      .+   +.+++.+.++||+|+|++||+|+++
T Consensus       236 ~~---~~l~~~~~~~~w~e~n~~lf~al~~  262 (396)
T PRK10814        236 SQ---QTLPEGTKWQDWRERKGELFQAVRM  262 (396)
T ss_pred             HH---HHCCCCCEEEEHHHHHHHHHHHHHH
T ss_conf             99---7544575474799989999999999


No 5  
>TIGR02213 lolE_release lipoprotein releasing system, transmembrane protein LolE; InterPro: IPR011926    This protein is part of an unusual ABC transporter complex that releases lipoproteins from the periplasmic side of the bacterial inner membrane, rather than transport any substrate across the inner membrane. In some species, the permease-like transmembrane protein is represented by two paralogs, LolC and LolE, both in the LolCDE complex. This family consists of LolE, as found in Escherichia coli and related species.; GO: 0006810 transport, 0009276 1-2nm peptidoglycan-based cell wall, 0016021 integral to membrane.
Probab=100.00  E-value=0  Score=333.07  Aligned_cols=262  Identities=23%  Similarity=0.387  Sum_probs=246.6

Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEECCC----CCCCCHH
Q ss_conf             479999998752255454689999999999999999999999998769999963111024530000000----0012136
Q 537021.9.peg.7    6 RFEVIVAWRYLFSNRKNAFISIASFISFIGVMIGVMALIVVMSVMNGFREDMIKRVLGINGHVVIQQKY----YPLVDYQ   81 (270)
Q Consensus         6 ~~~~~iA~R~l~~~k~r~~~~~is~ls~lgI~igv~~li~~lsv~~G~~~~i~~~i~~~~~~i~i~~~~----~~~~~~~   81 (270)
                      +++|+|.|||-+.++|...+++||.+|.+|||+|||+||+.||.|||||+|+.+|+++.-||-++++-.    .|.++|+
T Consensus         1 ~l~llIg~Rfsrgkqrn~mVslIs~~StIGIAlGVAVlIvGLSAMNGFERELn~RiLaVvPHaEie~v~nate~p~~nWQ   80 (416)
T TIGR02213         1 SLALLIGLRFSRGKQRNKMVSLISVISTIGIALGVAVLIVGLSAMNGFERELNSRILAVVPHAEIEAVDNATEAPVENWQ   80 (416)
T ss_pred             CCCCEEEHHHHHCHHCCCCCHHHHHHHHHHHHHHHHHHEEEHHCCCCHHHHHCCCCEEEECCHHHHCCCCCCCCCHHHHH
T ss_conf             97501001244000128701024577676688743541220004560367764951576073453036533567567899


Q ss_pred             HHHHHHHCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCC-CCCCCCHHHHHHHH
Q ss_conf             66555422641034665420011111222332210111243100000120011002775421111-23421013454554
Q 537021.9.peg.7   82 FIANRLDFIPDVIKVLPFVSGQAFVSGLSSGGSGVLVRGISNSDFSYLQNSFSRFYGNVSNDFDR-GKGVIIGKDLARNL  160 (270)
Q Consensus        82 ~~~~~l~~~~~V~~~~p~i~~~~~i~~~~~~~~~v~i~Gv~~~~~~~~~~~~~~~~~~~~~~~~~-~~~iiiG~~lA~~L  160 (270)
                      ++.+++.++|+|.+++||++.+|++++ +++-+.+.++||+|+.|.+++...+...+..|..+.. .+++++|+.+|++|
T Consensus        81 ~~~~~~~~nP~i~aaaPyv~FTgLVE~-G~kLkavqVkGVepq~Eq~vS~~~~Fvq~qaW~~F~~Ge~q~i~G~GvA~eL  159 (416)
T TIGR02213        81 EVLKRVQKNPKIKAAAPYVKFTGLVER-GAKLKAVQVKGVEPQAEQKVSALSSFVQEQAWRKFKKGENQVIVGKGVADEL  159 (416)
T ss_pred             HHHHHHHHCCCEEEECCCCEEEEEEEC-CCCEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEEEEHHHC
T ss_conf             999999738952787272012134421-7722289974588102355520000233564674207797079833004320


Q ss_pred             HCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCCEEEEEHHHHHHHCCCC-CCEEEEEEEECCHHHHHH
Q ss_conf             2133320231134421000122110000122102331024455516898548899971899-871079999569889999
Q 537021.9.peg.7  161 GISIGDKINILSPYGDVTPMGMGIRSKSYTVLGMFRMRFPDYDNGMVYMSLQEAQLYFNLE-NAVSGIEVFVKDPDAIEK  239 (270)
Q Consensus       161 ~l~vGD~i~l~~~~~~~~~~~~~~~~~~f~V~GI~~sg~~~~D~~~v~~~l~~~q~l~~~~-~~~~~i~i~l~d~~~~~~  239 (270)
                      ++++||.|+|+.|+.+.+-.-..|+..+.+|+|+++-.+ .+|.+++++|+.+||.+++++ +.+|+|++|++|+.+++.
T Consensus       160 ~VkvGDwvtllIpq~n~~~k~~qPkRvrv~VtgiL~L~G-QlDhs~allPlAdAQ~yl~~gP~~vtGiaLK~~DvfnA~~  238 (416)
T TIGR02213       160 DVKVGDWVTLLIPQSNEDEKLAQPKRVRVKVTGILRLDG-QLDHSYALLPLADAQQYLDLGPDSVTGIALKLDDVFNARK  238 (416)
T ss_pred             CCCCCCEEEEEECCCCCCCCCCCCCCEEEEEEEEEEECC-CHHHHHHHHHHHHHHHHHHCCCCCEEEEEEECCCCHHHHH
T ss_conf             866265799971078974323588300378877875366-1226678712787655765489830147642478022789


Q ss_pred             HHHHHHHHCCCCEEEEEHHHHHHHHHHHHC
Q ss_conf             999999861998599968998898999860
Q 537021.9.peg.7  240 THENIVRILGNGVVVIDWQQRYQIFFSCYE  269 (270)
Q Consensus       240 ~~~~i~~~l~~~~~v~~w~e~~~~lf~ai~  269 (270)
                      +.++.-+..+.-.++++|..+++-+|.-||
T Consensus       239 lvr~~g~~~~~yvY~~sWi~~fGymYRDIQ  268 (416)
T TIGR02213       239 LVREVGEDIDSYVYLKSWISKFGYMYRDIQ  268 (416)
T ss_pred             HHHHHHCCCCCEEEEEEHHHCCCCEEHHHH
T ss_conf             989873035634776301300682003699


No 6  
>PRK10535 macrolide transporter ATP-binding /permease protein; Provisional
Probab=99.89  E-value=7.2e-22  Score=143.22  Aligned_cols=232  Identities=16%  Similarity=0.211  Sum_probs=160.6

Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC-CEEECCCC-----CC---C
Q ss_conf             999999875225545468999999999999999999999999876999996311102453-00000000-----01---2
Q 537021.9.peg.7    8 EVIVAWRYLFSNRKNAFISIASFISFIGVMIGVMALIVVMSVMNGFREDMIKRVLGINGH-VVIQQKYY-----PL---V   78 (270)
Q Consensus         8 ~~~iA~R~l~~~k~r~~~~~is~ls~lgI~igv~~li~~lsv~~G~~~~i~~~i~~~~~~-i~i~~~~~-----~~---~   78 (270)
                      ++.+|||+++++|.|      |+|++|||++||+++++++++.+|+++.+.+++-++.++ +.|.+...     +.   .
T Consensus       257 alr~A~~sl~~~KlR------s~LT~LGI~IGI~sVi~~~slg~G~~~~i~~~~~~lg~n~i~V~p~~~~~~~~~~~~~~  330 (648)
T PRK10535        257 ALTMAWRAMAANKMR------TLLTMLGIIIGIASVVSIVVVGDAAKQMVLADIRAIGTNTIDIYPGKDFGDDDPQYQQA  330 (648)
T ss_pred             HHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCCC
T ss_conf             999999999885889------99999999999999999999988999999999986088779998367668888532356


Q ss_pred             CHHHHHHHHHCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCC--C-CCCCCCCHHH
Q ss_conf             136665554226410346654200111112223322101112431000001200110027754211--1-1234210134
Q 537021.9.peg.7   79 DYQFIANRLDFIPDVIKVLPFVSGQAFVSGLSSGGSGVLVRGISNSDFSYLQNSFSRFYGNVSNDF--D-RGKGVIIGKD  155 (270)
Q Consensus        79 ~~~~~~~~l~~~~~V~~~~p~i~~~~~i~~~~~~~~~v~i~Gv~~~~~~~~~~~~~~~~~~~~~~~--~-~~~~iiiG~~  155 (270)
                      ...+..+.+++.|+|..++|.+..++.+.. ++......+.|+++++......  ....|......  + ..+.+++|+.
T Consensus       331 l~~~d~~~i~~~~~v~~v~p~~~~~~~~~~-~~~~~~~~i~g~~~~~~~i~~~--~~~~Gr~f~~~d~~~~~~V~Vlg~~  407 (648)
T PRK10535        331 LKYDDLIAIQKQPWVASATPAVSQSLRLRY-GNIDVAASANGVSGDYFNVYGM--TFSEGNTFNQEQLNGRAQVVVLDSN  407 (648)
T ss_pred             CCHHHHHHHHCCCCCEEEEEEEEEEEEEEE-CCEEEEEEEEECCCCHHHHHCC--CHHCCCCCCHHHHHCCCCEEEECHH
T ss_conf             999999998548986499679875489999-9898889999417137878196--5213876897787357958996479


Q ss_pred             HHHHHHC---C-CCCEEEECCCCCCCCCCCCCCCCCCCCCCEEEEEECCCC---CCCEEEEEHHHHHHHCCCCCCEEEEE
Q ss_conf             5455421---3-332023113442100012211000012210233102445---55168985488999718998710799
Q 537021.9.peg.7  156 LARNLGI---S-IGDKINILSPYGDVTPMGMGIRSKSYTVLGMFRMRFPDY---DNGMVYMSLQEAQLYFNLENAVSGIE  228 (270)
Q Consensus       156 lA~~L~l---~-vGD~i~l~~~~~~~~~~~~~~~~~~f~V~GI~~sg~~~~---D~~~v~~~l~~~q~l~~~~~~~~~i~  228 (270)
                      +|++|--   + +|+.+.+              ....|+|+||++.....+   ++..+++|+.+++..+..++..+.+.
T Consensus       408 ~a~~Lf~~~~~~vG~~i~i--------------~~~~~~VIGV~~~~~~~~g~~~~~~v~iP~~t~~~~~~~~~~~~~i~  473 (648)
T PRK10535        408 TRRQLFPHKADVVGEVILV--------------GNMPATVIGVAEEKQSMFGSSKVLRVWLPYSTMSGRVMGQSWLNSIT  473 (648)
T ss_pred             HHHHHCCCCCCCCCCEEEE--------------CCEEEEEEEEECCCCCCCCCCCCCEEEEEHHHHHHHHCCCCCCEEEE
T ss_conf             9998538987888988998--------------98779999997546666678877469988899998842777521799


Q ss_pred             EEECCHHHHHHHHHHHHHHCC-----CCEEEEEHHHHHH
Q ss_conf             995698899999999998619-----9859996899889
Q 537021.9.peg.7  229 VFVKDPDAIEKTHENIVRILG-----NGVVVIDWQQRYQ  262 (270)
Q Consensus       229 i~l~d~~~~~~~~~~i~~~l~-----~~~~v~~w~e~~~  262 (270)
                      +++++..+.+++.+++.+.+.     .++.+.++.+.-+
T Consensus       474 v~~~~~~~~~~~~~~i~~~l~~~~~~~d~~~~~~~~~~~  512 (648)
T PRK10535        474 VRVKEGYDSAEAEQQLTRLLTLRHGKKDFFTWNMDSVLK  512 (648)
T ss_pred             EEECCCCCHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHH
T ss_conf             997788888999999999998735876530137999999


No 7  
>TIGR03434 ADOP Acidobacterial duplicated orphan permease. Members of this protein family are found, so far, only in three species of Acidobacteria, namely Acidobacteria bacterium Ellin345, Acidobacterium capsulatum ATCC 51196, and Solibacter usitatus Ellin6076, where they form large paralogous families. Each protein contains two copies of a domain called the efflux ABC transporter permease protein (pfam02687). However, unlike other members of that family (including LolC, FtsX, and MacB), genes for these proteins are essentially never found fused or adjacent to ABC transporter ATP-binding protein (pfam00005) genes. We name this family ADOP, for Acidobacterial Duplicated Orphan Permease, to reflect the restricted lineage, internal duplication, lack of associated ATP-binding cassette proteins, and permease homology. The function is unknown.
Probab=99.27  E-value=8.5e-11  Score=80.45  Aligned_cols=212  Identities=14%  Similarity=0.134  Sum_probs=105.7

Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-CCC--CEEECCC------CCCC
Q ss_conf             999999875225545468999999999999999999999999876999996311102-453--0000000------0012
Q 537021.9.peg.7    8 EVIVAWRYLFSNRKNAFISIASFISFIGVMIGVMALIVVMSVMNGFREDMIKRVLGI-NGH--VVIQQKY------YPLV   78 (270)
Q Consensus         8 ~~~iA~R~l~~~k~r~~~~~is~ls~lgI~igv~~li~~lsv~~G~~~~i~~~i~~~-~~~--i~i~~~~------~~~~   78 (270)
                      .+++|||+|+++|..++      +.++|.++|+++.+++.++.+.+   +.. -+.+ +++  ..+....      ....
T Consensus         4 dlK~A~R~L~k~k~~s~------inI~gLalGi~~~~~if~~v~~~---~~~-~l~y~~~dri~~v~~~~~~~~~~~~~~   73 (803)
T TIGR03434         4 DLRYALRTLRRSPGFTA------VAVLTLALGIGANTAIFSVVNAV---LLR-PLPYPDPDRLVALWERGPGAGSPGGNF   73 (803)
T ss_pred             HHHHHHHHHHHCHHHHH------HHHHHHHHHHHHHHHHHHHHHHH---HCC-CCCCCCCCEEEEEEEECCCCCCCCCCC
T ss_conf             89999999987748899------99999999999999999999999---556-889898451899998778888788888


Q ss_pred             CHHHHHHHHHCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCC----CCCCCCCCCCHH
Q ss_conf             1366655542264103466542001111122233221011124310000012001100277542----111123421013
Q 537021.9.peg.7   79 DYQFIANRLDFIPDVIKVLPFVSGQAFVSGLSSGGSGVLVRGISNSDFSYLQNSFSRFYGNVSN----DFDRGKGVIIGK  154 (270)
Q Consensus        79 ~~~~~~~~l~~~~~V~~~~p~i~~~~~i~~~~~~~~~v~i~Gv~~~~~~~~~~~~~~~~~~~~~----~~~~~~~iiiG~  154 (270)
                      ......+..++.++++.+..+......+.. ++........-+||++++.+.-.  ...|+...    .....+.++|++
T Consensus        74 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~vd~~fF~~f~~~--~l~Gr~~~~~~~~~~~~~~vvlS~  150 (803)
T TIGR03434        74 SYPDYEDWRAQNRSFSSLAAYSGASFNLTG-GGEPERVRGALVSANFFPVLGVQ--PALGRLFTPEDDRPGAPPVVVLSY  150 (803)
T ss_pred             CHHHHHHHHHHCHHHHHHHEEECCEEEECC-CCCCEEEEEEEECCCHHHHCCCC--CCCCCCCCCCHHCCCCCCEEEECH
T ss_conf             978999999846167776704132058606-88744877899985369775986--025888895001369999899829


Q ss_pred             HHHHHH-H-CC--CCCEEEECCCCCCCCCCCCCCCCCCCCCCEEEEEECCCC-CCCEEEEEHHHHHHHCCCCC---CEEE
Q ss_conf             454554-2-13--332023113442100012211000012210233102445-55168985488999718998---7107
Q 537021.9.peg.7  155 DLARNL-G-IS--IGDKINILSPYGDVTPMGMGIRSKSYTVLGMFRMRFPDY-DNGMVYMSLQEAQLYFNLEN---AVSG  226 (270)
Q Consensus       155 ~lA~~L-~-l~--vGD~i~l~~~~~~~~~~~~~~~~~~f~V~GI~~sg~~~~-D~~~v~~~l~~~q~l~~~~~---~~~~  226 (270)
                      .+|+++ + -.  +|.++.+              ..+.|+|+||+......- ...-+++|+...+......+   ....
T Consensus       151 ~~a~k~Fg~d~~~iGkti~~--------------~~~~~~V~GV~p~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~  216 (803)
T TIGR03434       151 ALWQRRFGGDPAVVGRTIRL--------------NGRPYTVVGVMPPGFRFPGRDPDVWVPLAMDPALLAGADRGSHWLR  216 (803)
T ss_pred             HHHHHHHCCCCCCCCCEEEE--------------CCEEEEEEEEECCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCEEE
T ss_conf             99999838992004887999--------------9977899999779878889885499987444100245788870289


Q ss_pred             EEEEECCHHHHHHHHHHHHH
Q ss_conf             99995698899999999998
Q 537021.9.peg.7  227 IEVFVKDPDAIEKTHENIVR  246 (270)
Q Consensus       227 i~i~l~d~~~~~~~~~~i~~  246 (270)
                      ..+++++..+.+++.++++.
T Consensus       217 ~~~~L~~g~~~~~~~~~l~~  236 (803)
T TIGR03434       217 VIGRLKPGVTLAQAQAELDA  236 (803)
T ss_pred             EEEEECCCCCHHHHHHHHHH
T ss_conf             99996899999999999999


No 8  
>COG3127 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=98.66  E-value=5.9e-06  Score=53.02  Aligned_cols=222  Identities=14%  Similarity=0.170  Sum_probs=124.3

Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-CCCCEEECCCCCCCCHHHHH
Q ss_conf             47999999875225545468999999999999999999999999876999996311102-45300000000012136665
Q 537021.9.peg.7    6 RFEVIVAWRYLFSNRKNAFISIASFISFIGVMIGVMALIVVMSVMNGFREDMIKRVLGI-NGHVVIQQKYYPLVDYQFIA   84 (270)
Q Consensus         6 ~~~~~iA~R~l~~~k~r~~~~~is~ls~lgI~igv~~li~~lsv~~G~~~~i~~~i~~~-~~~i~i~~~~~~~~~~~~~~   84 (270)
                      ++.+..++|..|+.  +.|.-+     .+.++++|+++..+-|+...|++.+.++--.+ .+|+.... +.+..  ++..
T Consensus         5 p~a~R~~~RE~R~G--~~l~i~-----~~al~L~vAaiaA~~sls~rm~~gl~~qare~L~gD~~f~~-~r~~~--~~~~   74 (829)
T COG3127           5 PLALRWALREWRSG--RGLLIF-----LAALALAVAAIAALGSLSDRMEKGLAQQAREFLAGDRVFVS-NRPVP--PAER   74 (829)
T ss_pred             HHHHHHHHHHHHCC--CCHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEC-CCCCC--HHHH
T ss_conf             78899999986049--846999-----99999999999988799999987788889998525568754-89899--8999


Q ss_pred             HHHHCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCC--CCCCHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHC
Q ss_conf             5542264103466542001111122233221011124310000--01200110027754211112342101345455421
Q 537021.9.peg.7   85 NRLDFIPDVIKVLPFVSGQAFVSGLSSGGSGVLVRGISNSDFS--YLQNSFSRFYGNVSNDFDRGKGVIIGKDLARNLGI  162 (270)
Q Consensus        85 ~~l~~~~~V~~~~p~i~~~~~i~~~~~~~~~v~i~Gv~~~~~~--~~~~~~~~~~~~~~~~~~~~~~iiiG~~lA~~L~l  162 (270)
                      +...+. + ..++-..+..+++-. ++...-+.+++||..|--  ++....+..............++.+...+-+.||+
T Consensus        75 ~~~~~~-G-l~~s~~~rf~a~~~~-g~~~qLv~vKAVD~aYPL~G~L~t~p~~~~~~~~~~~~~~~~~~v~p~Ll~~Lgl  151 (829)
T COG3127          75 EEAAKL-G-LAVSATLRFMAMLFA-GDGQQLVEVKAVDDAYPLYGTLETAPQASLAELLGGKPQAGGVWVAPRLLERLGL  151 (829)
T ss_pred             HHHHHH-H-HHHHHHHHHHHHCCC-CCCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHCCCCCCCCEEECHHHHHHHCC
T ss_conf             999862-1-168889899986418-9855001454115657766520467665314664468888864336679998299


Q ss_pred             CCCCEEEECCCCCCCCCCCCCCCCCCCCCCEEEEEE----CCCCC-CCEEEEEHHHHHHHCCC--CCCEEEEEEEE--CC
Q ss_conf             333202311344210001221100001221023310----24455-51689854889997189--98710799995--69
Q 537021.9.peg.7  163 SIGDKINILSPYGDVTPMGMGIRSKSYTVLGMFRMR----FPDYD-NGMVYMSLQEAQLYFNL--ENAVSGIEVFV--KD  233 (270)
Q Consensus       163 ~vGD~i~l~~~~~~~~~~~~~~~~~~f~V~GI~~sg----~~~~D-~~~v~~~l~~~q~l~~~--~~~~~~i~i~l--~d  233 (270)
                      |+||+|.+    ++          ..|+|.|.....    ...|. ...++++++++.+- |.  +|.--....++  .|
T Consensus       152 kvGd~i~v----G~----------~tlri~~~v~~EPD~~~~~F~~APR~mi~~adl~~T-GlvQpGSrV~~~y~v~g~p  216 (829)
T COG3127         152 KVGDRIDV----GD----------ATLRIAGEVTQEPDAGSNGFQFAPRLMISLADLDAT-GLVQPGSRVTYRYKVAGPP  216 (829)
T ss_pred             CCCCEEEE----CC----------CEEEEEEEECCCCCCCCCCCCCCCCEEEEHHHHHHC-CCCCCCCEEEEEEEECCCH
T ss_conf             85754763----47----------327998776068865677301375203427443012-7777786047898725884


Q ss_pred             HHHHHHHHHHHHHHCCC-CEEEE
Q ss_conf             88999999999986199-85999
Q 537021.9.peg.7  234 PDAIEKTHENIVRILGN-GVVVI  255 (270)
Q Consensus       234 ~~~~~~~~~~i~~~l~~-~~~v~  255 (270)
                      +......+....+.+|+ .+++.
T Consensus       217 ~a~~~~~~~~~~~~~p~~rw~~~  239 (829)
T COG3127         217 NALIAYIKWQAPQLFPEQRWYIR  239 (829)
T ss_pred             HHHHHHHHHHHHCCCCCCCCCHH
T ss_conf             88899999876400861344010


No 9  
>COG0577 SalY ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]
Probab=98.52  E-value=3.2e-05  Score=48.85  Aligned_cols=229  Identities=20%  Similarity=0.240  Sum_probs=129.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CCEEECCCC-------CC------CCHHHHHHHHHCCCCHH
Q ss_conf             99999999999999999999987699999631110245-300000000-------01------21366655542264103
Q 537021.9.peg.7   29 SFISFIGVMIGVMALIVVMSVMNGFREDMIKRVLGING-HVVIQQKYY-------PL------VDYQFIANRLDFIPDVI   94 (270)
Q Consensus        29 s~ls~lgI~igv~~li~~lsv~~G~~~~i~~~i~~~~~-~i~i~~~~~-------~~------~~~~~~~~~l~~~~~V~   94 (270)
                      ++++++||++|+++++.++++..|++......+....+ .+.+.+...       +.      ...+.....+...+.+.
T Consensus         4 ~~l~~~~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (419)
T COG0577           4 TLLTILGIIIGVALVVALLALGLGFRLTVLASLSDLGANTILVLPKKNNAIFTPNPLSTETLLGLAEDVIKILAFIFIVY   83 (419)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             59999999999999999999877678999999863468708998435543123220001234435788998766556665


Q ss_pred             HHHHHHHCC--CCCCCCCCCCCCCCCCCCCCCCCC---CCCCHHHHCCCCCCCCCC----CCCCCCCHHHHHHHHHCCCC
Q ss_conf             466542001--111122233221011124310000---012001100277542111----12342101345455421333
Q 537021.9.peg.7   95 KVLPFVSGQ--AFVSGLSSGGSGVLVRGISNSDFS---YLQNSFSRFYGNVSNDFD----RGKGVIIGKDLARNLGISIG  165 (270)
Q Consensus        95 ~~~p~i~~~--~~i~~~~~~~~~v~i~Gv~~~~~~---~~~~~~~~~~~~~~~~~~----~~~~iiiG~~lA~~L~l~vG  165 (270)
                      .+.+.....  ..+.. ........+.|+++....   ..........|.......    .....+++..+|+++..+.+
T Consensus        84 ~~~~~~~~~~~~~~~~-~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~  162 (419)
T COG0577          84 SVSFLLSSREEFGLLL-LGGLSKAQIVGLLFLENFLISVLAILLGIIEGRLFSKLFVLTIIKKSVVIGLELAEELFKKGP  162 (419)
T ss_pred             HHHHHHCCCCCEEEEE-CCCCCCEEEEEECCCHHHHHHHHHCCCCEECCEECCCHHHHHCCCEEEEECHHHHHHHCCCCC
T ss_conf             3102202442136886-055023379960320000014443031123150023013332022035723688876222455


Q ss_pred             --CEEEECCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCC------CCEEEEEHHHHHHHCCCCC-----CEEEEEEEEC
Q ss_conf             --20231134421000122110000122102331024455------5168985488999718998-----7107999956
Q 537021.9.peg.7  166 --DKINILSPYGDVTPMGMGIRSKSYTVLGMFRMRFPDYD------NGMVYMSLQEAQLYFNLEN-----AVSGIEVFVK  232 (270)
Q Consensus       166 --D~i~l~~~~~~~~~~~~~~~~~~f~V~GI~~sg~~~~D------~~~v~~~l~~~q~l~~~~~-----~~~~i~i~l~  232 (270)
                        +.+.........        ...++|+|+++......+      .+.+++|....+.......     ..+.+.+...
T Consensus       163 ~~~~~~~~~~~~~~--------~~~~~vig~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  234 (419)
T COG0577         163 LLDGLGYTISINGL--------GLLFKVIGILKLFGSSLSASFSKLNNLILIPLSAFRLLLNARILFTVSSLSAVTITVA  234 (419)
T ss_pred             CCCCCCEEEEECCC--------CCEEEEEEEEECCCCCCCCCCCCCCCEEEEEHHHHHHHHHCCCCCCCCCCCEEEEEEC
T ss_conf             33443407874045--------3037999998226543321123456459951688987752134222244306999961


Q ss_pred             CHHHHHH----HHHHHHHHCCCC-----EEEEEHHHHHHHHHH
Q ss_conf             9889999----999999861998-----599968998898999
Q 537021.9.peg.7  233 DPDAIEK----THENIVRILGNG-----VVVIDWQQRYQIFFS  266 (270)
Q Consensus       233 d~~~~~~----~~~~i~~~l~~~-----~~v~~w~e~~~~lf~  266 (270)
                      +..+.+.    +.+.+++.++..     +.+.+.++.-++.-+
T Consensus       235 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  277 (419)
T COG0577         235 GVASIQEVSKKVAELLAERLSNKKESKDYDVKDIQKVLENLKS  277 (419)
T ss_pred             CCCHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEHHHHHHHHHH
T ss_conf             6411667789999999987234565443455107878988999


No 10 
>TIGR01185 devC DevC protein; InterPro: IPR005891   ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs.   ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain .    The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyze ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarize the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site , , .   The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis , , , , , .   Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1).     This family contains a predicted membrane subunit, DevC, of an ABC transporter known so far from two species of cyanobacteria. Some experimental data from mutational analysis { suggest that this protein, along with DevA and DevB encoded in the same operon, may be involved in the transport/export of glycolipids.; GO: 0005215 transporter activity, 0006810 transport, 0016020 membrane.
Probab=98.39  E-value=3.1e-06  Score=54.59  Aligned_cols=221  Identities=16%  Similarity=0.234  Sum_probs=126.2

Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHCCCCCEEECCCC-CC-----CCH
Q ss_conf             999875225545468999999999999999999999999876999996311----10245300000000-01-----213
Q 537021.9.peg.7   11 VAWRYLFSNRKNAFISIASFISFIGVMIGVMALIVVMSVMNGFREDMIKRV----LGINGHVVIQQKYY-PL-----VDY   80 (270)
Q Consensus        11 iA~R~l~~~k~r~~~~~is~ls~lgI~igv~~li~~lsv~~G~~~~i~~~i----~~~~~~i~i~~~~~-~~-----~~~   80 (270)
                      |||..|++.|.|      -..++.|||++  =+++.|-  -||++.+.++-    .++.||+.+-+... ..     +..
T Consensus         3 L~W~QL~~E~~R------L~~A~AGIAFA--D~L~FMQ--~GF~~ALy~S~VR~~~SLQGD~~~l~~Q~~~~~~~~PF~~   72 (381)
T TIGR01185         3 LAWLQLTREKTR------LLVALAGIAFA--DVLIFMQ--LGFKDALYDSAVRLHKSLQGDLVLLSKQSDAVLAMKPFAA   72 (381)
T ss_pred             CHHHHHHHHHHH------HHHHHHHHHHH--HHHHHHH--HHHHHHHHHCCCCCCCCCCCCEEEEECCCCCCCCCCCHHH
T ss_conf             415688888999------99998768999--9999986--3045654311245453345567888335342005896346


Q ss_pred             HHHHHHHHCCCCHHHHHHHHHCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCCCHH-----
Q ss_conf             66655542264103466542001111122-233221011124310000012001100277542111123421013-----
Q 537021.9.peg.7   81 QFIANRLDFIPDVIKVLPFVSGQAFVSGL-SSGGSGVLVRGISNSDFSYLQNSFSRFYGNVSNDFDRGKGVIIGK-----  154 (270)
Q Consensus        81 ~~~~~~l~~~~~V~~~~p~i~~~~~i~~~-~~~~~~v~i~Gv~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiiG~-----  154 (270)
                      ..+ -+-.+++.|.+++|.+-.-..=++. -+-++.+.++|++|+.---  +. ....++.+. .+..+.++--.     
T Consensus        73 RRL-Y~~l~~~SV~~~~~~Y~D~~~WKNP~T~~~R~I~~~G~NP~~N~~--NL-~GV~ENLD~-~K~PD~~LFD~~SR~E  147 (381)
T TIGR01185        73 RRL-YKALELASVKDVTSLYLDISIWKNPETKLSRSILVFGINPVTNII--NL-AGVAENLDK-LKLPDVVLFDRDSREE  147 (381)
T ss_pred             HHH-HHHHCCCCCCCCCEEEEECCCCCCCCCCCEEEEEEEEECCCCCCC--CC-CCHHHHHHH-HCCCCEEEECCCCCCC
T ss_conf             789-998368742356327873234548887650378987106765664--56-633443443-1589667730677743


Q ss_pred             --HHHHHHHCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCEEEEEECC-CCCCCEEEEEHHHHHHHCCCC-CCEEEEEEE
Q ss_conf             --4545542133320231134421000122110000122102331024-455516898548899971899-871079999
Q 537021.9.peg.7  155 --DLARNLGISIGDKINILSPYGDVTPMGMGIRSKSYTVLGMFRMRFP-DYDNGMVYMSLQEAQLYFNLE-NAVSGIEVF  230 (270)
Q Consensus       155 --~lA~~L~l~vGD~i~l~~~~~~~~~~~~~~~~~~f~V~GI~~sg~~-~~D~~~v~~~l~~~q~l~~~~-~~~~~i~i~  230 (270)
                        .+|+.+  .-|..|.            ...+.+..+|.|+|.-|.+ .-|.+.+--++..++-+=.+. +.+..=.++
T Consensus       148 yGP~~~~l--E~~~~~~------------~EV~~RRI~V~GLFTLG~SFGADG~L~TSD~NFlRLFP~R~~~~ID~G~~~  213 (381)
T TIGR01185       148 YGPVAKLL--EADQSVS------------AEVRRRRINVVGLFTLGASFGADGNLVTSDLNFLRLFPLRDRSLIDIGLLR  213 (381)
T ss_pred             CCCCHHHH--CCCCCEE------------EEECCEEEEEEEEEEECCCCCCCCCCHHHHHHHHHCCCCCCCCCCCEEEEE
T ss_conf             47524663--2889466------------623253788887653064415787403432466742777565541034454


Q ss_pred             ECCHHHHHHHHHHHHHHCCC-CEEEEEHHHH
Q ss_conf             56988999999999986199-8599968998
Q 537021.9.peg.7  231 VKDPDAIEKTHENIVRILGN-GVVVIDWQQR  260 (270)
Q Consensus       231 l~d~~~~~~~~~~i~~~l~~-~~~v~~w~e~  260 (270)
                      +|...+.+.++++|++.+++ +..|.|-++.
T Consensus       214 LKPG~~P~~~~~E~R~~L~~GD~~VlTK~~l  244 (381)
T TIGR01185       214 LKPGVDPEKVVEELRSELTDGDVNVLTKEKL  244 (381)
T ss_pred             CCCCCCHHHHHHHHHHHCCCCCCEEHHHHHH
T ss_conf             0698888899999986468764020205788


No 11 
>COG3127 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=97.84  E-value=0.0012  Score=39.86  Aligned_cols=228  Identities=12%  Similarity=0.144  Sum_probs=106.4

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHCCCCC---EEECCCCCCCCH
Q ss_conf             347999999875225545468999999999999999999999999876-9999963111024530---000000001213
Q 537021.9.peg.7    5 SRFEVIVAWRYLFSNRKNAFISIASFISFIGVMIGVMALIVVMSVMNG-FREDMIKRVLGINGHV---VIQQKYYPLVDY   80 (270)
Q Consensus         5 ~~~~~~iA~R~l~~~k~r~~~~~is~ls~lgI~igv~~li~~lsv~~G-~~~~i~~~i~~~~~~i---~i~~~~~~~~~~   80 (270)
                      ++.+|.+|.-++.|.+.-+.      .-.+...+|.|.|.+ +.+..| ..+..++++=.-.|+.   .|++.+     .
T Consensus       452 ~s~~lRLal~~l~R~~~~t~------sq~~algLgl~LLa~-l~lirgdLl~~wq~~lP~~APN~F~vnI~~~q-----v  519 (829)
T COG3127         452 TSLALRLALGNLLRPGAATP------SQVLALGLGLMLLAL-LALIRGDLLRQWQQQLPPDAPNFFFVNIQPSQ-----V  519 (829)
T ss_pred             CCHHHHHHHHHHCCCCCCCH------HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHCCCCCCCEEEEECCHHH-----H
T ss_conf             63668999887427875527------889998999999999-99973179999987589878774787268655-----1


Q ss_pred             HHHHHHHHC-CCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCC------------CCCCCCCCHHHHCCCCCCCCCC-C
Q ss_conf             666555422-6410346654200111112223322101112431------------0000012001100277542111-1
Q 537021.9.peg.7   81 QFIANRLDF-IPDVIKVLPFVSGQAFVSGLSSGGSGVLVRGISN------------SDFSYLQNSFSRFYGNVSNDFD-R  146 (270)
Q Consensus        81 ~~~~~~l~~-~~~V~~~~p~i~~~~~i~~~~~~~~~v~i~Gv~~------------~~~~~~~~~~~~~~~~~~~~~~-~  146 (270)
                      ......+.+ .++=....|.+.+.-+-.+.+...    =++++|            .+..+.........|..+.... .
T Consensus       520 a~f~a~l~~~~~~~~~~~PmvrGRl~aiNGq~v~----~~~~~~~~~~al~rd~~LT~~~~~P~~n~l~aG~Ww~~~~~g  595 (829)
T COG3127         520 APFSALLAGASPEGETFYPMVRGRLTAINGQPVT----EMSVPPSARWALRRDLNLTWAEKRPENNPLTAGRWWPKNDSG  595 (829)
T ss_pred             HHHHHHHHHCCCCCCCCCCEEEEEEEEECCCCCC----CCCCCCHHHHHHHCCCCCCHHHCCCCCCCCCCCCCCCCCCCC
T ss_conf             5799997424887655565022057776584675----246892578888234476003008998863556588988889


Q ss_pred             CCCCCCHHHHHHHHHCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCEEEEEECCCC--CCCEEEEEHHHHHHHCCCCCCE
Q ss_conf             23421013454554213332023113442100012211000012210233102445--5516898548899971899871
Q 537021.9.peg.7  147 GKGVIIGKDLARNLGISIGDKINILSPYGDVTPMGMGIRSKSYTVLGMFRMRFPDY--DNGMVYMSLQEAQLYFNLENAV  224 (270)
Q Consensus       147 ~~~iiiG~~lA~~L~l~vGD~i~l~~~~~~~~~~~~~~~~~~f~V~GI~~sg~~~~--D~~~v~~~l~~~q~l~~~~~~~  224 (270)
                      .+++-...++|++||+|+||++|+..-..+.+          -+|..+=+....++  |-.++|-| .+++   +.+-  
T Consensus       596 ~P~VS~e~~~A~~LglKLGDtvTf~v~gq~i~----------A~I~slR~VeWesl~pNF~~IF~P-~tl~---g~P~--  659 (829)
T COG3127         596 EPEVSMEEGEAKRLGLKLGDTVTFMVLGQNIT----------AKITSLRKVEWESLRPNFYMIFSP-GTLD---GAPQ--  659 (829)
T ss_pred             CCCCCHHHHHHHHHCCCCCCEEEEEECCCEEE----------EEECEEEEECCCCCCCCEEEEECC-HHHC---CCCH--
T ss_conf             97440208679870976277799984262677----------651102232000256557999682-1104---7744--


Q ss_pred             EEEEEEECCHHHHHHHHHHHHHHCCCCEEEEEHHH---HHHHHHH
Q ss_conf             07999956988999999999986199859996899---8898999
Q 537021.9.peg.7  225 SGIEVFVKDPDAIEKTHENIVRILGNGVVVIDWQQ---RYQIFFS  266 (270)
Q Consensus       225 ~~i~i~l~d~~~~~~~~~~i~~~l~~~~~v~~w~e---~~~~lf~  266 (270)
                      +.+ .....|...+.+-.++.+.+|. ..+.+-++   +-..+++
T Consensus       660 twl-tsfr~~~~~~~~l~ql~r~fPt-vt~v~v~~~L~~v~~ll~  702 (829)
T COG3127         660 TWL-TSFRIPNGQAALLRQLTRAFPT-VTLVDVGAALDQVNQLLD  702 (829)
T ss_pred             HHH-EEEECCCCCHHHHHHHHHHCCC-EEEEEHHHHHHHHHHHHH
T ss_conf             053-1255678516799999872896-178669999999999999


No 12 
>TIGR03434 ADOP Acidobacterial duplicated orphan permease. Members of this protein family are found, so far, only in three species of Acidobacteria, namely Acidobacteria bacterium Ellin345, Acidobacterium capsulatum ATCC 51196, and Solibacter usitatus Ellin6076, where they form large paralogous families. Each protein contains two copies of a domain called the efflux ABC transporter permease protein (pfam02687). However, unlike other members of that family (including LolC, FtsX, and MacB), genes for these proteins are essentially never found fused or adjacent to ABC transporter ATP-binding protein (pfam00005) genes. We name this family ADOP, for Acidobacterial Duplicated Orphan Permease, to reflect the restricted lineage, internal duplication, lack of associated ATP-binding cassette proteins, and permease homology. The function is unknown.
Probab=97.76  E-value=0.0026  Score=38.00  Aligned_cols=169  Identities=18%  Similarity=0.154  Sum_probs=86.2

Q ss_pred             HHHHHHHHHCCCCHHHHHHHHHCC--------C-CCCC----CCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCC--CC
Q ss_conf             366655542264103466542001--------1-1112----2233221011124310000012001100277542--11
Q 537021.9.peg.7   80 YQFIANRLDFIPDVIKVLPFVSGQ--------A-FVSG----LSSGGSGVLVRGISNSDFSYLQNSFSRFYGNVSN--DF  144 (270)
Q Consensus        80 ~~~~~~~l~~~~~V~~~~p~i~~~--------~-~i~~----~~~~~~~v~i~Gv~~~~~~~~~~~~~~~~~~~~~--~~  144 (270)
                      .+.+.+++++.|+|++++..-...        . .+.+    ..+....+....+|+++++.....  ...|....  +.
T Consensus       478 ~~~l~~~l~~~pgV~~vs~s~~~p~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~v~~~y~~~~gi~--ll~Gr~f~~~d~  555 (803)
T TIGR03434       478 YRRLLERLRALPGVESAALASSLPLGGNGWSTGVTIEGRPPPPPGEEPLALYRRVSPGYFETMGIP--LLRGRDFTERDT  555 (803)
T ss_pred             HHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCEEEECCCCCCCCCCCCEEEEEEECHHHHHHHCCE--EECCCCCCCHHC
T ss_conf             999999985589843898762577668888851687782478877561256665478489880980--524888980012


Q ss_pred             CC-CCCCCCHHHHHHHH---HCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCEEEEE---EC-CCCCCCEEEEEHHHHHH
Q ss_conf             11-23421013454554---2133320231134421000122110000122102331---02-44555168985488999
Q 537021.9.peg.7  145 DR-GKGVIIGKDLARNL---GISIGDKINILSPYGDVTPMGMGIRSKSYTVLGMFRM---RF-PDYDNGMVYMSLQEAQL  216 (270)
Q Consensus       145 ~~-~~~iiiG~~lA~~L---~l~vGD~i~l~~~~~~~~~~~~~~~~~~f~V~GI~~s---g~-~~~D~~~v~~~l~~~q~  216 (270)
                      .. .+.+++.+.+|+++   +-.+|.++.+-..           ....++|+||++-   +. .+--...+|+|..    
T Consensus       556 ~~~~~~~iine~~a~~l~~~~~~iG~~~~~~~~-----------~~~~~~IvGVv~D~~~~s~~~~~~p~v~~~~~----  620 (803)
T TIGR03434       556 AGSPPVAIVNEAFARRYFPGEDPIGKRIRLGGD-----------DGPWYEIVGVVGDVRYAGLDEPPRPEVYLPYA----  620 (803)
T ss_pred             CCCCCEEEECHHHHHHHCCCCCCCCCEEEECCC-----------CCCEEEEEEEECCCCCCCCCCCCCCEEEEECC----
T ss_conf             689837998799999747988988778985588-----------99705999998875246777888866999713----


Q ss_pred             HCCCCCCEEEEEEEEC-CHHH-HHHHHHHHHHHCCC-C-EEEEEHHHHHHHHHHH
Q ss_conf             7189987107999956-9889-99999999986199-8-5999689988989998
Q 537021.9.peg.7  217 YFNLENAVSGIEVFVK-DPDA-IEKTHENIVRILGN-G-VVVIDWQQRYQIFFSC  267 (270)
Q Consensus       217 l~~~~~~~~~i~i~l~-d~~~-~~~~~~~i~~~l~~-~-~~v~~w~e~~~~lf~a  267 (270)
                        ........+.++.. |+.. .+.+.+.+++..|+ . +.+.+..|.....|..
T Consensus       621 --~~~~~~~~i~v~~~~~~~~~~~~i~~~~~~~~p~~~~~~~~~l~~~~~~~~~~  673 (803)
T TIGR03434       621 --QSPSRGMTLVVRTAGDPAALAAAVRRAVRAIDPNLPVYNVRTMEEQVDDSLAQ  673 (803)
T ss_pred             --CCCCCCEEEEEECCCCHHHHHHHHHHHHHHHCCCCCCEEEECHHHHHHHHHHH
T ss_conf             --58888659999858999999999999999868999840103099999999887


No 13 
>PRK11026 ftsX cell division protein FtsX; Provisional
Probab=94.78  E-value=0.11  Score=28.78  Aligned_cols=93  Identities=12%  Similarity=0.060  Sum_probs=46.2

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEECCCC-CCCCHHHH
Q ss_conf             34799999987522554546899999999999999999999999987699999631110245300000000-01213666
Q 537021.9.peg.7    5 SRFEVIVAWRYLFSNRKNAFISIASFISFIGVMIGVMALIVVMSVMNGFREDMIKRVLGINGHVVIQQKYY-PLVDYQFI   83 (270)
Q Consensus         5 ~~~~~~iA~R~l~~~k~r~~~~~is~ls~lgI~igv~~li~~lsv~~G~~~~i~~~i~~~~~~i~i~~~~~-~~~~~~~~   83 (270)
                      +++.+.=|+++++|++--++.   |+++ ++|++........  +....+ .+.++. .-..++.|.-..+ +..+.+.+
T Consensus        13 ~ry~l~eal~~l~Rn~~~sl~---ti~~-iaisL~l~g~~~l--~~~Nv~-~~~~~~-~~~~~IsvfL~~~~~~~~~~~l   84 (309)
T PRK11026         13 VRYAWHGALADLKRKPFATFL---TVMV-IAISLTLPSVCYL--VWKNVN-QAATQF-YPSPQLTVYLHKTLDDDAANAV   84 (309)
T ss_pred             HHHHHHHHHHHHHCCHHHHHH---HHHH-HHHHHHHHHHHHH--HHHHHH-HHHHHH-CCCCEEEEEECCCCCHHHHHHH
T ss_conf             999999999998706999999---9999-9999999999999--999999-999963-6684599987899899999999


Q ss_pred             HHHHHCCCCHHHHHHHHHCCCC
Q ss_conf             5554226410346654200111
Q 537021.9.peg.7   84 ANRLDFIPDVIKVLPFVSGQAF  105 (270)
Q Consensus        84 ~~~l~~~~~V~~~~p~i~~~~~  105 (270)
                      .+++++.|+|+.+.-.-..+|+
T Consensus        85 ~~~l~~~~~V~~v~~vskeeAl  106 (309)
T PRK11026         85 VEQLRAEQGVEKVNYLSREEAL  106 (309)
T ss_pred             HHHHHCCCCCCEEEEECHHHHH
T ss_conf             9998657884379886799999


No 14 
>COG2177 FtsX Cell division protein [Cell division and chromosome partitioning]
Probab=86.39  E-value=2.3  Score=21.30  Aligned_cols=89  Identities=15%  Similarity=0.089  Sum_probs=39.0

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEECCCCC-CCCHHHH
Q ss_conf             347999999875225545468999999999999999999999999876999996311102453000000000-1213666
Q 537021.9.peg.7    5 SRFEVIVAWRYLFSNRKNAFISIASFISFIGVMIGVMALIVVMSVMNGFREDMIKRVLGINGHVVIQQKYYP-LVDYQFI   83 (270)
Q Consensus         5 ~~~~~~iA~R~l~~~k~r~~~~~is~ls~lgI~igv~~li~~lsv~~G~~~~i~~~i~~~~~~i~i~~~~~~-~~~~~~~   83 (270)
                      +.+.+.=+++.++++...      ++.++..|++..+...+.+.+..-.++ ..+.. ..+.+++++-.... ..+.+.+
T Consensus         6 ~~~~~~~~l~~l~r~~~~------t~a~v~~vaitl~L~~~~~l~~~nv~~-~a~~~-~~~v~i~vyL~~~~~~~~~~~v   77 (297)
T COG2177           6 FGYHLREALKGLPRNPWM------TFATVSVVAITLFLPGVFLLVVLNVNS-LATQW-ESQVEITVYLQIDADQDDAALV   77 (297)
T ss_pred             HHHHHHHHHHHCCCCCHH------HHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHH-HCCCEEEEEEECCCCHHHHHHH
T ss_conf             999999998644556568------899999999999999999999999999-99863-2162589997368786889999


Q ss_pred             HHHHHCCCCHHHHHHHHH
Q ss_conf             555422641034665420
Q 537021.9.peg.7   84 ANRLDFIPDVIKVLPFVS  101 (270)
Q Consensus        84 ~~~l~~~~~V~~~~p~i~  101 (270)
                      .++++..|+|+++.-.-+
T Consensus        78 ~~~i~~~~gV~~v~~~sr   95 (297)
T COG2177          78 REKIEGIPGVKSVRFISR   95 (297)
T ss_pred             HHHHHCCCCCCEEEEECH
T ss_conf             999846899644787679


No 15 
>TIGR01553 formate-DH-alph formate dehydrogenase, alpha subunit; InterPro: IPR006443   This family of sequences describe a subset of formate dehydrogenase alpha chains found mainly in proteobacteria but also in Aquifex aeolicus. The alpha chain contains domains for molybdopterin dinucleotide binding and molybdopterin oxidoreductase. The holo-enzyme also contains beta and gamma subunits of 32 and 20 kDa. The enzyme catalyzes the oxidation of formate (produced from pyruvate during anaerobic growth) to carbon dioxide with the concomitant release of two electrons and two protons. The electrons are utilised mainly in the nitrate respiration by nitrate reductase . In Escherichia coli and Salmonella typhi, there are two forms of the formate dehydrogenase, one induced by nitrate which is strictly anaerobic (fdn), and one incuced during the transition from aerobic to anaerobic growth (fdo). This subunit is one of only three proteins in Escherichia coli which contain selenocysteine .; GO: 0008863 formate dehydrogenase activity, 0045333 cellular respiration, 0005737 cytoplasm.
Probab=80.42  E-value=1.4  Score=22.59  Aligned_cols=42  Identities=29%  Similarity=0.468  Sum_probs=18.4

Q ss_pred             CHHHHHHHHHCCCCCEEEECCCCCCCCCCCCCC-CCCCCCCCE
Q ss_conf             013454554213332023113442100012211-000012210
Q 537021.9.peg.7  152 IGKDLARNLGISIGDKINILSPYGDVTPMGMGI-RSKSYTVLG  193 (270)
Q Consensus       152 iG~~lA~~L~l~vGD~i~l~~~~~~~~~~~~~~-~~~~f~V~G  193 (270)
                      ||++||..=|++-||.|.|.+-++...+....- |.|.|+|.|
T Consensus       948 i~EeLA~ekGI~nGD~V~~~s~Rg~i~A~A~vTKRiKpl~i~G  990 (1043)
T TIGR01553       948 ISEELAKEKGIQNGDLVKVESVRGKIKAVAVVTKRIKPLKIDG  990 (1043)
T ss_pred             CCHHHHHHCCCCCCCEEEEEECCEEEEEEEEEEECCCCCEECC
T ss_conf             3358885448654786899722514899999730467513268


No 16 
>PRK10549 signal transduction histidine-protein kinase BaeS; Provisional
Probab=77.43  E-value=5.1  Score=19.33  Aligned_cols=31  Identities=19%  Similarity=0.211  Sum_probs=18.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9999999999999999999998769999963
Q 537021.9.peg.7   29 SFISFIGVMIGVMALIVVMSVMNGFREDMIK   59 (270)
Q Consensus        29 s~ls~lgI~igv~~li~~lsv~~G~~~~i~~   59 (270)
                      +++++..+++..+.+.+-+++-.||.+.+.+
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~f~~~f~~y~~~   45 (467)
T PRK10549         15 AIFATCIVLLITMHWAVRISFERGFIDYIKH   45 (467)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             9999999999999999999999989999999


No 17 
>TIGR01462 greA transcription elongation factor GreA; InterPro: IPR006359   Bacterial GreA and GreB IPR006358 from INTERPRO promote transcription elongation by stimulating an endogenous, endonucleolytic transcript cleavage activity of the RNA polymerase (RNAP) , allowing RNA transcription to continue past template-encoded arresting sites. GreA and GreB are sequence homologues and have homologues in every known bacterial genome. GreA and GreB stimulate transcript cleavage in different ways; GreA induces cleavage of 3'-RNA fragments 23 nt in length and can only prevent the formation of arrested complexes, whereas GreB induces cleavage of fragments up to 18 nt in length and can rescue pre-existing arrested complexes.    The 2.2 Å resolution crystal structure of Escherichia coli GreA comprises an N-terminal antiparallel alpha-helical coiled coil, and a C-terminal globular domain. While the C-terminal domain binds RNAP, the N-terminal coiled coil interacts with the transcript 3' end and is responsible for stimulating the transcript cleavage reaction . Functional differences between GreA and GreB correlate with the distribution of positively charged residues on one face of the N-terminal coiled coil.  Because members of the family outside the Proteobacteria resemble GreA more closely than GreB, the GreB clade (IPR006358 from INTERPRO) forms a plausible outgroup and the remainder of the GreA/B family, included in this family, is designated GreA. In the Chlamydias and some spirochetes, the conserved region of these proteins is found as the C-terminal region of a much larger protein.  ; GO: 0003677 DNA binding, 0003711 transcription elongation regulator activity, 0006355 regulation of transcription DNA-dependent.
Probab=72.47  E-value=2.7  Score=20.94  Aligned_cols=90  Identities=19%  Similarity=0.348  Sum_probs=53.8

Q ss_pred             HHHHHHHHCCCCHHHHHHHHHCCCCCCCCC--CCCCC--CCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCC-CCCCCHHH
Q ss_conf             666555422641034665420011111222--33221--01112431000001200110027754211112-34210134
Q 537021.9.peg.7   81 QFIANRLDFIPDVIKVLPFVSGQAFVSGLS--SGGSG--VLVRGISNSDFSYLQNSFSRFYGNVSNDFDRG-KGVIIGKD  155 (270)
Q Consensus        81 ~~~~~~l~~~~~V~~~~p~i~~~~~i~~~~--~~~~~--v~i~Gv~~~~~~~~~~~~~~~~~~~~~~~~~~-~~iiiG~~  155 (270)
                      ..+..+|.++.+...-+-.++...+- + +  .-.-|  |.|.-.+.+....     -.+.|....++..+ .-|=+.+.
T Consensus        52 ~~~E~RI~~le~~l~~A~vi~~~~~~-~-~gd~V~~G~~V~~~~~~~~e~~~-----y~IVG~~EaD~~~giekIS~~SP  124 (155)
T TIGR01462        52 GFIEGRIAELEDLLANAEVIDDSKLS-T-DGDKVSFGSTVTIKDEDTGEEET-----YTIVGSWEADPKEGIEKISIESP  124 (155)
T ss_pred             HHHHHHHHHHHHHHHCEEECCHHHCC-C-CCCEEECCCEEEEEECCCCCEEE-----EEEECCCCCCHHCCCEEEECCCH
T ss_conf             99988999999887620623601004-7-88377157589999838996489-----99834520553308078226770


Q ss_pred             HHHHH-HCCCCCEEEECCCCCCC
Q ss_conf             54554-21333202311344210
Q 537021.9.peg.7  156 LARNL-GISIGDKINILSPYGDV  177 (270)
Q Consensus       156 lA~~L-~l~vGD~i~l~~~~~~~  177 (270)
                      ||+.| |-++||.+.+-.|.+..
T Consensus       125 lg~aL~Gkk~GD~~~v~~P~g~~  147 (155)
T TIGR01462       125 LGKALIGKKVGDEVEVQVPKGEK  147 (155)
T ss_pred             HHHHHCCCCCCCEEEEEECCCEE
T ss_conf             23533376258778998589237


No 18 
>pfam11688 DUF3285 Protein of unknown function (DUF3285). This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=71.51  E-value=7.3  Score=18.46  Aligned_cols=33  Identities=12%  Similarity=0.338  Sum_probs=21.3

Q ss_pred             HHHHHHHHHCCCCCCHHHH-HHHHHHHHHHHHHH
Q ss_conf             9999987522554546899-99999999999999
Q 537021.9.peg.7    9 VIVAWRYLFSNRKNAFISI-ASFISFIGVMIGVM   41 (270)
Q Consensus         9 ~~iA~R~l~~~k~r~~~~~-is~ls~lgI~igv~   41 (270)
                      .++|-||.-|+.+.++.-| ++.+..+|..+|++
T Consensus         8 vKLAMRNMVRKg~~SL~HF~LT~~gll~~lv~la   41 (45)
T pfam11688         8 VKLAMRNMVRKGGKSLLHFGLTALGLLGFLVLIA   41 (45)
T ss_pred             HHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHH
T ss_conf             9999999998068400568999999999999999


No 19 
>TIGR02609 doc_partner putative addiction module antidote; InterPro: IPR013432    This entry contains putative addiction module antidote proteins encoded by genes that appear recurrently in two-gene operons where the other gene encodes a Doc (death-on-curing) protein IPR006440 from INTERPRO. Note that these proteins tend to be found on bacterial chromosomes, not on plasmids..
Probab=67.44  E-value=2.7  Score=20.90  Aligned_cols=25  Identities=28%  Similarity=0.490  Sum_probs=21.1

Q ss_pred             CCCCCCHHHHHHHHHCCCCCEEEEC
Q ss_conf             2342101345455421333202311
Q 537021.9.peg.7  147 GKGVIIGKDLARNLGISIGDKINIL  171 (270)
Q Consensus       147 ~~~iiiG~~lA~~L~l~vGD~i~l~  171 (270)
                      +-++.|.+++.+.||++-||++.++
T Consensus         9 S~vv~lpKE~l~~L~~~~GDtl~i~   33 (77)
T TIGR02609         9 SLVVTLPKEVLESLGLKEGDTLEIY   33 (77)
T ss_pred             CEEEEECHHHHHHCCCCCCCEEEEE
T ss_conf             1226747488974689999827899


No 20 
>COG4771 FepA Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]
Probab=67.36  E-value=2  Score=21.65  Aligned_cols=60  Identities=18%  Similarity=0.266  Sum_probs=31.1

Q ss_pred             HHHHHHHHHHHHHCCCCCE-EECCCCCCCCHHHHHHHHHCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             7699999631110245300-00000001213666555422641034665420011111222332210111243100
Q 537021.9.peg.7   51 NGFREDMIKRVLGINGHVV-IQQKYYPLVDYQFIANRLDFIPDVIKVLPFVSGQAFVSGLSSGGSGVLVRGISNSD  125 (270)
Q Consensus        51 ~G~~~~i~~~i~~~~~~i~-i~~~~~~~~~~~~~~~~l~~~~~V~~~~p~i~~~~~i~~~~~~~~~v~i~Gv~~~~  125 (270)
                      .|+++.+.+.=    +-|. |...+-.-..+.++.+.|+.+|+|.-.           +.......+.|+|+.|++
T Consensus        41 s~~eQ~lk~AP----aSVSvIT~edlqk~p~rDl~ealr~vpGV~lt-----------g~~G~nr~IsIRGM~~~y  101 (699)
T COG4771          41 SGAEQNLKDAP----ASVSVITAEDLQKRPYRDLAEALRTVPGVNLT-----------GNRGNNRQISIRGMGPEY  101 (699)
T ss_pred             HHHHHHHHCCC----CEEEEEEHHHHHHCCHHHHHHHHHCCCCEEEE-----------CCCCCCCCEEEECCCCCC
T ss_conf             24556765188----43789729985226411399998428964776-----------667875635771168753


No 21 
>TIGR01425 SRP54_euk signal recognition particle protein SRP54; InterPro: IPR006325    The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes , . SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor . In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane.    This entry represents the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species.; GO: 0005525 GTP binding, 0008312 7S RNA binding, 0006614 SRP-dependent cotranslational protein targeting to membrane, 0048500 signal recognition particle.
Probab=64.52  E-value=0.81  Score=23.87  Aligned_cols=65  Identities=12%  Similarity=0.157  Sum_probs=44.3

Q ss_pred             CCCCEEEEEHHHHHHHCCCCCCEEEEEEEECCHHHHHHHH--HHHHHHCCCCEEEEEHHHHHHHHHHH
Q ss_conf             5551689854889997189987107999956988999999--99998619985999689988989998
Q 537021.9.peg.7  202 YDNGMVYMSLQEAQLYFNLENAVSGIEVFVKDPDAIEKTH--ENIVRILGNGVVVIDWQQRYQIFFSC  267 (270)
Q Consensus       202 ~D~~~v~~~l~~~q~l~~~~~~~~~i~i~l~d~~~~~~~~--~~i~~~l~~~~~v~~w~e~~~~lf~a  267 (270)
                      +|+--.|=+-....+|||+.| +.++.=+++|....++-.  .-|+++-.-.+-+++|+||.+||.+.
T Consensus       299 v~d~E~F~~~~FvskLLGmGD-l~GL~~~v~~l~~~~~~~hk~li~~L~eG~fTlRd~~eQ~~NllKM  365 (453)
T TIGR01425       299 VDDFEIFDAEPFVSKLLGMGD-LKGLIDKVQDLKLDDEEKHKELIEKLKEGTFTLRDLYEQFQNLLKM  365 (453)
T ss_pred             CCCCCCCCCCCHHHHHCCCCC-HHHHHHHHHHHCHHCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHC
T ss_conf             276057899714775402021-8899999975142103107999999835961068899999876311


No 22 
>cd02792 MopB_CT_Formate-Dh-Na-like Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the major electron donor to the nitrate respiratory chain. Also included in this CD is the Desulfovibrio gigas tungsten formate dehydrogenase, DgW-FDH. In contrast to Fdh-N, which is a  functional heterotrimer, DgW-FDH is a heterodimer. The DgW-FDH complex is composed of a large subunit carrying the W active site and one [4Fe-4S] center, and a small subunit that harbors a series of three [4Fe-4S] clusters as well as a putative vacant binding site for a fourth cluster. The smaller subunit is not included in this alignment. This CD (MopB_CT_Formate-Dh-Na-like) is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=62.77  E-value=7.1  Score=18.55  Aligned_cols=54  Identities=24%  Similarity=0.213  Sum_probs=35.9

Q ss_pred             CCCCCHHHHHHHHHCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCCEEEEEHHHHHH
Q ss_conf             342101345455421333202311344210001221100001221023310244555168985488999
Q 537021.9.peg.7  148 KGVIIGKDLARNLGISIGDKINILSPYGDVTPMGMGIRSKSYTVLGMFRMRFPDYDNGMVYMSLQEAQL  216 (270)
Q Consensus       148 ~~iiiG~~lA~~L~l~vGD~i~l~~~~~~~~~~~~~~~~~~f~V~GI~~sg~~~~D~~~v~~~l~~~q~  216 (270)
                      +-+-|....|++||++-||.|.+.++.+....        +.+|.       ..+....+|+|.-+...
T Consensus        35 ~~v~i~p~dA~~lgi~dGd~V~v~s~~G~i~~--------~a~vt-------~~v~~g~vf~p~h~~~~   88 (122)
T cd02792          35 MFVEISPELAAERGIKNGDMVWVSSPRGKIKV--------KALVT-------DRVKPHEVGIPYHWGGM   88 (122)
T ss_pred             CEEEECHHHHHHCCCCCCCEEEEECCCEEEEE--------EEEEC-------CCCCCCEEEEECCCCCC
T ss_conf             89999999998749988988999889989999--------99988-------99789979996202765


No 23 
>TIGR01439 lp_hng_hel_AbrB transcriptional regulator, AbrB family; InterPro: IPR006339   This DNA-binding domain is found in proteins like AbrB, a transition state regulator in Bacillus subtilis, whose DNA-binding domain structure in solution was determined by NMR. The domain binds DNA as a dimer in what is termed a looped-hinge helix fold. Some members of the family have two copies of the domain in tandem. The domain is found usually at the N-terminus of a small protein. .
Probab=58.17  E-value=5.2  Score=19.28  Aligned_cols=26  Identities=27%  Similarity=0.634  Sum_probs=22.8

Q ss_pred             CCCCCCHHHHHHHHHCCCCCEEEECC
Q ss_conf             23421013454554213332023113
Q 537021.9.peg.7  147 GKGVIIGKDLARNLGISIGDKINILS  172 (270)
Q Consensus       147 ~~~iiiG~~lA~~L~l~vGD~i~l~~  172 (270)
                      ...|+|-+.+-++||++-||.+.+..
T Consensus         7 kG~i~IPK~iR~~lgl~eGd~l~~~~   32 (44)
T TIGR01439         7 KGQIVIPKEIREKLGLKEGDKLEVIR   32 (44)
T ss_pred             CCEEEECHHHHHHCCCCCCCEEEEEE
T ss_conf             76299273896406999998788988


No 24 
>cd02789 MopB_CT_FmdC-FwdD The MopB_FmdC-FwdD CD includes the  C-terminus of subunit C of molybdenum formylmethanofuran dehydrogenase (FmdC) and subunit D of tungsten formylmethanofuran dehydrogenase (FwdD), and other related proteins. Formylmethanofuran dehydrogenase catalyzes the first step in methane formation from CO2 in methanogenic archaea and some eubacteria. Members of this CD belong to the molybdopterin_binding superfamily of proteins. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=54.75  E-value=12  Score=17.18  Aligned_cols=57  Identities=25%  Similarity=0.366  Sum_probs=36.5

Q ss_pred             CCCCHHHHHHHHHCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCCEEEEEHH-HHHHHCCC
Q ss_conf             4210134545542133320231134421000122110000122102331024455516898548-89997189
Q 537021.9.peg.7  149 GVIIGKDLARNLGISIGDKINILSPYGDVTPMGMGIRSKSYTVLGMFRMRFPDYDNGMVYMSLQ-EAQLYFNL  220 (270)
Q Consensus       149 ~iiiG~~lA~~L~l~vGD~i~l~~~~~~~~~~~~~~~~~~f~V~GI~~sg~~~~D~~~v~~~l~-~~q~l~~~  220 (270)
                      -+-|.-.=|++||++-||.|.+.+..+..            .+.....   .+.-...+|||.. ++..+.+-
T Consensus        32 ~~~i~P~D~~~lGi~~Gd~V~v~s~~G~v------------v~~a~~~---~~v~~G~vFmP~g~waN~lv~~   89 (106)
T cd02789          32 YCEINPEDYKLLGKPEGDKVKVTSEFGEV------------VVFAKEN---EGVPEGMVFIPMGPWANVVVDP   89 (106)
T ss_pred             EEEECHHHHHHCCCCCCCEEEEECCCEEE------------EEEEEEC---CCCCCCEEEEECCHHHHEEECC
T ss_conf             99989999998098999999998798789------------9999989---9988996997566676020186


No 25 
>PRK01885 greB transcription elongation factor GreB; Reviewed
Probab=53.84  E-value=11  Score=17.56  Aligned_cols=47  Identities=23%  Similarity=0.366  Sum_probs=31.2

Q ss_pred             CCCCCCCCCCCCCCCCHHHHHHHH-HCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCEE
Q ss_conf             277542111123421013454554-2133320231134421000122110000122102
Q 537021.9.peg.7  137 YGNVSNDFDRGKGVIIGKDLARNL-GISIGDKINILSPYGDVTPMGMGIRSKSYTVLGM  194 (270)
Q Consensus       137 ~~~~~~~~~~~~~iiiG~~lA~~L-~l~vGD~i~l~~~~~~~~~~~~~~~~~~f~V~GI  194 (270)
                      .|....++.. +.|-..+.+++.| |-++||+|++-.|.+..          +|+|..|
T Consensus       109 VG~~Ead~~~-g~IS~~SPlg~ALlGkk~Gd~V~v~~P~G~~----------~~~Il~I  156 (159)
T PRK01885        109 VGPDEIDGRK-GYISIDSPMARALLKKEVGDEVTVNTPAGEA----------EWYVNEI  156 (159)
T ss_pred             ECHHHCCCCC-CCCCCCCHHHHHHHCCCCCCEEEEECCCCCE----------EEEEEEE
T ss_conf             4824426667-8222469899998389999989998599978----------9999999


No 26 
>PRK00226 greA transcription elongation factor GreA; Reviewed
Probab=51.48  E-value=13  Score=17.07  Aligned_cols=47  Identities=23%  Similarity=0.548  Sum_probs=30.1

Q ss_pred             CCCCCCCCCCCCCCCCHHHHHHHH-HCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCEE
Q ss_conf             277542111123421013454554-2133320231134421000122110000122102
Q 537021.9.peg.7  137 YGNVSNDFDRGKGVIIGKDLARNL-GISIGDKINILSPYGDVTPMGMGIRSKSYTVLGM  194 (270)
Q Consensus       137 ~~~~~~~~~~~~~iiiG~~lA~~L-~l~vGD~i~l~~~~~~~~~~~~~~~~~~f~V~GI  194 (270)
                      .|....++..+ .|-+-+.+++.| |-++||.|.+-.|.+..          +|+|..|
T Consensus       108 VG~~Ead~~~g-~IS~~SPlg~ALlGk~~Gd~V~v~~P~G~~----------~~~I~~I  155 (157)
T PRK00226        108 VGDDEADIKEG-KISVNSPIARALIGKKVGDTVTVKAPGGEY----------EVEIVSV  155 (157)
T ss_pred             ECCCCCCCCCC-EECCCCHHHHHHHCCCCCCEEEEECCCCCE----------EEEEEEE
T ss_conf             13322456676-524779899998289999989998499878----------9999998


No 27 
>cd00508 MopB_CT_Fdh-Nap-like This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex  and catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. Formate dehydrogenase N (alpha subunit) is the major electron donor to the bacterial nitrate respiratory chain and nitrate reductases, Nap and Nas, catalyze the reduction of nitrate to nitrite. This CD (MopB_CT_Fdh-Nap-like) is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=49.97  E-value=9.6  Score=17.79  Aligned_cols=53  Identities=26%  Similarity=0.276  Sum_probs=35.7

Q ss_pred             CCCCCCHHHHHHHHHCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCCEEEEEHHHH
Q ss_conf             23421013454554213332023113442100012211000012210233102445551689854889
Q 537021.9.peg.7  147 GKGVIIGKDLARNLGISIGDKINILSPYGDVTPMGMGIRSKSYTVLGMFRMRFPDYDNGMVYMSLQEA  214 (270)
Q Consensus       147 ~~~iiiG~~lA~~L~l~vGD~i~l~~~~~~~~~~~~~~~~~~f~V~GI~~sg~~~~D~~~v~~~l~~~  214 (270)
                      .+.+.|....|++||++-||.|.|.++.+...          .+|  ...   ..+-...+|+|.-+.
T Consensus        34 ep~v~~~p~dA~~lgi~~Gd~V~v~s~~G~~~----------~~v--~v~---~~i~~g~v~~p~~~~   86 (120)
T cd00508          34 EPFVEIHPEDAARLGIKDGDLVRVSSRRGSVV----------VRA--RVT---DRVRPGTVFMPFHWG   86 (120)
T ss_pred             CCEEEECHHHHHHCCCCCCCEEEEECCCEEEE----------EEE--EEC---CCCCCCEEEEECCCC
T ss_conf             98899999999885999999999981773899----------999--987---996899799967008


No 28 
>pfam04014 SpoVT_AbrB SpoVT / AbrB like domain. One member of this family is AbrB from Bacillus subtilis. The product of the abrB gene is an ambiactive repressor and activator or the transcription of genes expressed during the transition state between vegetative growth and the onset of stationary phase and sporulation. AbrB is thought to interact directly with the transcription initiation regions of genes under its control. AbrB contains a helix-turn-helix structure, but this domain ends before the helix-turn-helix begins. The product of the Bacillus subtilis gene spoVT is another member of this family and is also a transcriptional regulator. DNA binding activity in the Bacillus 0 AbrB homologue requires hexamerisation. Another family member has been isolated from the archaeon Sulfolobus solfataricus and has been identified as a homologue of bacterial repressor-like proteins. The E.coli family member SohA or Prl1F appears to be bifunctional and is able to regulate its own expression as 
Probab=46.49  E-value=10  Score=17.58  Aligned_cols=26  Identities=31%  Similarity=0.539  Sum_probs=22.6

Q ss_pred             CCCCCCHHHHHHHHHCCCCCEEEECC
Q ss_conf             23421013454554213332023113
Q 537021.9.peg.7  147 GKGVIIGKDLARNLGISIGDKINILS  172 (270)
Q Consensus       147 ~~~iiiG~~lA~~L~l~vGD~i~l~~  172 (270)
                      +..|.|-+.+++.++++.||++.+..
T Consensus         6 s~~V~IPk~~r~~l~l~~Gd~v~~~~   31 (47)
T pfam04014         6 SGAVTIPKEVRKALGIKEGDEVELEV   31 (47)
T ss_pred             CCEEECCHHHHHHCCCCCCCCEEEEE
T ss_conf             64697459999970999899579997


No 29 
>TIGR01941 nqrF NADH:ubiquinone oxidoreductase, Na(+)-translocating, F subunit; InterPro: IPR010205   This entry represents the NqrF subunit of the six-protein, Na(+)-pumping NADH-quinone reductase of a number of marine and pathogenic Gram-negative bacteria.; GO: 0016655 oxidoreductase activity acting on NADH or NADPH quinone or similar compound as acceptor, 0051537 2 iron 2 sulfur cluster binding, 0006814 sodium ion transport, 0009276 1-2nm peptidoglycan-based cell wall, 0016021 integral to membrane.
Probab=45.71  E-value=9.4  Score=17.85  Aligned_cols=23  Identities=22%  Similarity=0.530  Sum_probs=14.1

Q ss_pred             HHHHHHCCCCCEEEECCCCCCCC
Q ss_conf             54554213332023113442100
Q 537021.9.peg.7  156 LARNLGISIGDKINILSPYGDVT  178 (270)
Q Consensus       156 lA~~L~l~vGD~i~l~~~~~~~~  178 (270)
                      =+.-.+||.||+|++..|+|+.-
T Consensus       256 SSYifsLKpGDKv~~sGPfGefF  278 (425)
T TIGR01941       256 SSYIFSLKPGDKVTVSGPFGEFF  278 (425)
T ss_pred             EEEEEECCCCCEEEEECCCCCCE
T ss_conf             33377447987779977888530


No 30 
>cd02775 MopB_CT Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a  large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and tungsten-containing enzymes, including formate dehydrogenase-H (Fdh-H) and -N (Fdh-N), several forms of nitrate reductase (Nap, Nas, NarG), dimethylsulfoxide reductase (DMSOR), thiosulfate reductase, formylmethanofuran dehydrogenase, and arsenite oxidase. Molybdenum is present in most of these enzymes in the form of molybdopterin, a modified pterin ring with a dithiolene side chain, which is responsible for ligating the Mo. In many bacterial and archaeal species, molybdopterin is in the form of a dinucleotide, with two molybdopterin dinucleotide units per molybdenum. These proteins can function as monomers, heterodimers, or heterotrimers, depending on the protein and organism. Also included in the MopB superfamily is
Probab=44.37  E-value=13  Score=17.08  Aligned_cols=54  Identities=24%  Similarity=0.247  Sum_probs=35.6

Q ss_pred             CCCCCHHHHHHHHHCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCCEEEEEHHHHHH
Q ss_conf             342101345455421333202311344210001221100001221023310244555168985488999
Q 537021.9.peg.7  148 KGVIIGKDLARNLGISIGDKINILSPYGDVTPMGMGIRSKSYTVLGMFRMRFPDYDNGMVYMSLQEAQL  216 (270)
Q Consensus       148 ~~iiiG~~lA~~L~l~vGD~i~l~~~~~~~~~~~~~~~~~~f~V~GI~~sg~~~~D~~~v~~~l~~~q~  216 (270)
                      +.+.+...-|+++|++-||.|.|.++.+...            +.-.+..   .+-...+++|..+...
T Consensus        23 ~~v~~np~dA~~~Gi~~Gd~v~v~~~~g~~~------------~~~~~~~---~v~~g~v~~~~g~~~~   76 (101)
T cd02775          23 PVVEINPEDAAALGIKDGDLVRVESRRGSVV------------LRAKVTD---GVPPGVVFLPHGWGHR   76 (101)
T ss_pred             CEEEECHHHHHHCCCCCCCEEEEEECCEEEE------------EEEEECC---CCCCCEEEEECCCCCC
T ss_conf             9899999999986998899999996985899------------9999889---9689989997860666


No 31 
>cd02790 MopB_CT_Formate-Dh_H Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is a monomer composed of a single polypeptide chain with a  Mo active site region and a [4Fe-4S] center. This CD (MopB_CT_Formate-Dh_H) is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=41.88  E-value=15  Score=16.70  Aligned_cols=52  Identities=29%  Similarity=0.397  Sum_probs=35.8

Q ss_pred             CCCCCHHHHHHHHHCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCCEEEEEHHHH
Q ss_conf             3421013454554213332023113442100012211000012210233102445551689854889
Q 537021.9.peg.7  148 KGVIIGKDLARNLGISIGDKINILSPYGDVTPMGMGIRSKSYTVLGMFRMRFPDYDNGMVYMSLQEA  214 (270)
Q Consensus       148 ~~iiiG~~lA~~L~l~vGD~i~l~~~~~~~~~~~~~~~~~~f~V~GI~~sg~~~~D~~~v~~~l~~~  214 (270)
                      +-+.|....|++||++-||.|.|.++.+...          .++  ...   ..+-...+|+|.-+.
T Consensus        35 p~v~i~p~dA~~lGi~~Gd~V~v~s~~G~i~----------~~a--~v~---~~i~~G~v~~p~h~~   86 (116)
T cd02790          35 EYVEINPEDAKRLGIEDGEKVRVSSRRGSVE----------VRA--RVT---DRVPEGVVFMPFHFA   86 (116)
T ss_pred             CEEEECHHHHHHCCCCCCCEEEEECCCEEEE----------EEE--EEC---CCCCCCEEEECCCCC
T ss_conf             8899899999885998899899987998999----------999--986---998899799727768


No 32 
>TIGR01398 FlhA flagellar biosynthesis protein FlhA; InterPro: IPR006301   These sequences describe the flagellar biosynthesis protein FlhA, one of a large number of genes associated with the biosynthesis of functional bacterial flagella. Homologs of many such proteins, including FlhA, function in type III protein secretion systems. ; GO: 0015031 protein transport, 0016021 integral to membrane, 0019861 flagellum.
Probab=39.21  E-value=27  Score=15.21  Aligned_cols=67  Identities=15%  Similarity=0.274  Sum_probs=39.9

Q ss_pred             HHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHCCCCCEEECCCC-CCCCHHHHHHHHHCCCCH
Q ss_conf             89999999999999999----------9999999987699999631110245300000000-012136665554226410
Q 537021.9.peg.7   25 ISIASFISFIGVMIGVM----------ALIVVMSVMNGFREDMIKRVLGINGHVVIQQKYY-PLVDYQFIANRLDFIPDV   93 (270)
Q Consensus        25 ~~~is~ls~lgI~igv~----------~li~~lsv~~G~~~~i~~~i~~~~~~i~i~~~~~-~~~~~~~~~~~l~~~~~V   93 (270)
                      ++++.+  +-|+.+||.          ...+.|+|++|+-..+=.-+++...=+.|+.... ...-.+.+..++.+.|-+
T Consensus       201 It~iNI--igGliiGv~~h~M~~~~Aa~~YT~LTiGDGLVaQIPaL~iS~AtG~~VTR~~~~~~~~~~~~~~QL~~~p~~  278 (713)
T TIGR01398       201 ITLINI--IGGLIIGVVQHGMSLSEAASTYTILTIGDGLVAQIPALIISTATGIIVTRASSDEGNLGKAIVTQLTANPRV  278 (713)
T ss_pred             HHHHHH--HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCHHH
T ss_conf             999999--887876566317638999988677768778999878999999876632225664012478999998622189


No 33 
>PRK05892 nucleoside diphosphate kinase regulator; Provisional
Probab=39.14  E-value=21  Score=15.82  Aligned_cols=28  Identities=25%  Similarity=0.404  Sum_probs=22.6

Q ss_pred             CCCHHHHHHHH-HCCCCCEEEECCCCCCC
Q ss_conf             21013454554-21333202311344210
Q 537021.9.peg.7  150 VIIGKDLARNL-GISIGDKINILSPYGDV  177 (270)
Q Consensus       150 iiiG~~lA~~L-~l~vGD~i~l~~~~~~~  177 (270)
                      |-..+.|++.| |-++||+|++.+|.|..
T Consensus       122 IS~~SPlgrALlGk~~GD~V~v~tP~G~~  150 (161)
T PRK05892        122 LTARSPLGQALAGHQPGDTVTYSTPQGPN  150 (161)
T ss_pred             ECCCCHHHHHHHCCCCCCEEEEECCCCCE
T ss_conf             63679789998489899989997599757


No 34 
>TIGR03243 arg_catab_AOST arginine and ornithine succinyltransferase subunits. In many bacteria, the sole member of this protein family is arginine N-succinyltransferase (EC 2.3.1.109), the AstA protein of the arginine succinyltransferase (ast) pathway. However, in Pseudomonas aeruginosa and several other species, a tandem gene pair encodes alpha and beta subunits of a heterodimer that is designated arginine and ornithine succinyltransferase (AOST).
Probab=38.68  E-value=17  Score=16.40  Aligned_cols=15  Identities=27%  Similarity=0.408  Sum_probs=7.4

Q ss_pred             CCCEEEEEHHHHHHH
Q ss_conf             551689854889997
Q 537021.9.peg.7  203 DNGMVYMSLQEAQLY  217 (270)
Q Consensus       203 D~~~v~~~l~~~q~l  217 (270)
                      +...+.++-++++.|
T Consensus       308 ~~~~~~l~~~~a~aL  322 (335)
T TIGR03243       308 DAGTLILSADAADAL  322 (335)
T ss_pred             CCCEEEECHHHHHHC
T ss_conf             699799589999775


No 35 
>cd02780 MopB_CT_Tetrathionate_Arsenate-R This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins.
Probab=38.05  E-value=20  Score=16.03  Aligned_cols=31  Identities=35%  Similarity=0.614  Sum_probs=26.4

Q ss_pred             CCCCCCHHHHHHHHHCCCCCEEEECCCCCCC
Q ss_conf             2342101345455421333202311344210
Q 537021.9.peg.7  147 GKGVIIGKDLARNLGISIGDKINILSPYGDV  177 (270)
Q Consensus       147 ~~~iiiG~~lA~~L~l~vGD~i~l~~~~~~~  177 (270)
                      .+.+.|...-|++++++-||.|.+.++.+..
T Consensus        29 en~v~inp~dA~~~Gi~~Gd~V~v~s~~G~i   59 (143)
T cd02780          29 ENPVWINPEDAAKLGIKTGDRVRVVTPGGSV   59 (143)
T ss_pred             CCEEEECHHHHHHCCCCCCCEEEEECCCEEE
T ss_conf             9859999999998699989999998798579


No 36 
>cd02778 MopB_CT_Thiosulfate-R-like The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme that catalyzes the reduction of polysulfide using either hydrogen or formate as the electron donor. Also included in this CD is the phenylacetyl-CoA:acceptor oxidoreductase, large subunit (PadB2), which has been characterized as a membrane-bound molybdenum-iron-sulfur enzyme involved in anaerobic metabolism of phenylalanine in the denitrifying bacterium Thauera aromatica. The MopB_CT_Thiosulfate-R-like CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=37.99  E-value=20  Score=15.99  Aligned_cols=30  Identities=33%  Similarity=0.535  Sum_probs=25.5

Q ss_pred             CCCCCHHHHHHHHHCCCCCEEEECCCCCCC
Q ss_conf             342101345455421333202311344210
Q 537021.9.peg.7  148 KGVIIGKDLARNLGISIGDKINILSPYGDV  177 (270)
Q Consensus       148 ~~iiiG~~lA~~L~l~vGD~i~l~~~~~~~  177 (270)
                      +.+-|...-|++||++-||.|.|.++.+..
T Consensus        30 ~~v~inp~dA~~~Gi~dGd~V~v~s~~G~~   59 (123)
T cd02778          30 NTLWINPETAARLGIKDGDRVEVSSARGKV   59 (123)
T ss_pred             CEEEECHHHHHHCCCCCCCEEEEECCCEEE
T ss_conf             889999999998499999999998899689


No 37 
>cd02781 MopB_CT_Acetylene-hydratase The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=37.83  E-value=20  Score=15.95  Aligned_cols=31  Identities=29%  Similarity=0.373  Sum_probs=26.2

Q ss_pred             CCCCCCHHHHHHHHHCCCCCEEEECCCCCCC
Q ss_conf             2342101345455421333202311344210
Q 537021.9.peg.7  147 GKGVIIGKDLARNLGISIGDKINILSPYGDV  177 (270)
Q Consensus       147 ~~~iiiG~~lA~~L~l~vGD~i~l~~~~~~~  177 (270)
                      .+.+-|....|+++|++-||.|.+.++.+..
T Consensus        32 ~p~v~i~p~dA~~~Gi~~Gd~V~v~s~~G~i   62 (130)
T cd02781          32 DPVAEINPETAAKLGIADGDWVWVETPRGRA   62 (130)
T ss_pred             CCEEEECHHHHHHCCCCCCCEEEEECCCEEE
T ss_conf             9989999999998499999999998489789


No 38 
>cd02786 MopB_CT_3 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=37.59  E-value=21  Score=15.90  Aligned_cols=57  Identities=21%  Similarity=0.128  Sum_probs=36.5

Q ss_pred             CCCCCCHHHHHHHHHCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCCEEEEEHHHHHHHC
Q ss_conf             234210134545542133320231134421000122110000122102331024455516898548899971
Q 537021.9.peg.7  147 GKGVIIGKDLARNLGISIGDKINILSPYGDVTPMGMGIRSKSYTVLGMFRMRFPDYDNGMVYMSLQEAQLYF  218 (270)
Q Consensus       147 ~~~iiiG~~lA~~L~l~vGD~i~l~~~~~~~~~~~~~~~~~~f~V~GI~~sg~~~~D~~~v~~~l~~~q~l~  218 (270)
                      .+.+.|...-|+++|++-||.|.+.++.+...            +.-.+..   .+-...+++|-.+-.+.+
T Consensus        30 ~p~v~i~p~DA~~~GI~dGd~V~v~n~~G~v~------------~~a~v~~---~i~~gvv~~~~gww~~~~   86 (116)
T cd02786          30 EPTLLIHPADAAARGIADGDLVVVFNDRGSVT------------LRAKVTD---DVPPGVVVAEGGWWREHS   86 (116)
T ss_pred             CCEEEECHHHHHHCCCCCCCEEEEECCCEEEE------------EEEEECC---CCCCCEEEECCCCCCCCC
T ss_conf             98699999999885999999999978998999------------9999779---828998997564457768


No 39 
>TIGR03245 arg_AOST_alph arginine/ornithine succinyltransferase, alpha subunit. In some bacteria, including Pseudomonas aeruginosa, the astB gene (arginine N-succinyltransferase) is replaced by tandem paralogs that form a heterodimer. This heterodimer from P. aeruginosa is characterized as arginine and ornithine N-2 succinyltransferase (AOST). Members of this protein family represent the less widespread paralog, designated AruI, or arginine/ornithine succinyltransferase, alpha subunit.
Probab=37.57  E-value=18  Score=16.23  Aligned_cols=12  Identities=8%  Similarity=0.205  Sum_probs=4.9

Q ss_pred             EEEEEHHHHHHH
Q ss_conf             689854889997
Q 537021.9.peg.7  206 MVYMSLQEAQLY  217 (270)
Q Consensus       206 ~v~~~l~~~q~l  217 (270)
                      .+.++-++++.|
T Consensus       312 ~v~l~~~~a~aL  323 (336)
T TIGR03245       312 LLRLKRDAAEAL  323 (336)
T ss_pred             EEEECHHHHHHC
T ss_conf             798599999774


No 40 
>COG2336 MazE Growth regulator [Signal transduction mechanisms]
Probab=37.56  E-value=18  Score=16.22  Aligned_cols=27  Identities=26%  Similarity=0.449  Sum_probs=22.9

Q ss_pred             CCCCCCHHHHHHHHHCCCCCEEEECCC
Q ss_conf             234210134545542133320231134
Q 537021.9.peg.7  147 GKGVIIGKDLARNLGISIGDKINILSP  173 (270)
Q Consensus       147 ~~~iiiG~~lA~~L~l~vGD~i~l~~~  173 (270)
                      +-.+.|...+++.||+..||.|++...
T Consensus        11 S~avrIP~~l~kql~l~~g~~v~v~v~   37 (82)
T COG2336          11 SAAVRIPAALLKQLNLTIGDEVEVEVG   37 (82)
T ss_pred             CCEEECCHHHHHHHCCCCCCEEEEEEC
T ss_conf             632661699998709975860899975


No 41 
>TIGR03244 arg_catab_AstA arginine N-succinyltransferase. In many bacteria, the arginine succinyltransferase (ast) pathway operon consists of five genes, including this protein, arginine N-succinyltransferase (EC 2.3.1.109). In a few species, such as Pseudomonas aeruginosa, the member of this family is encoded adjacent to a paralog, and the two polypeptides form a heterodimeric enzyme, active on both arginine and ornithine. In such species, this polypeptide may be treated as the beta subunit of an enzyme that may be named either arginine N-succinyltransferase (AST) or arginine and orthithine N-succinyltransferase (AOST).
Probab=37.18  E-value=18  Score=16.19  Aligned_cols=15  Identities=20%  Similarity=0.366  Sum_probs=7.3

Q ss_pred             CCCEEEEEHHHHHHH
Q ss_conf             551689854889997
Q 537021.9.peg.7  203 DNGMVYMSLQEAQLY  217 (270)
Q Consensus       203 D~~~v~~~l~~~q~l  217 (270)
                      |...+.++-++++.|
T Consensus       309 ~~~~~~l~~~~a~aL  323 (336)
T TIGR03244       309 DAGELVLTAAQADAL  323 (336)
T ss_pred             CCCEEEECHHHHHHC
T ss_conf             799898589999775


No 42 
>pfam11374 DUF3176 Protein of unknown function (DUF3176). This eukaryotic family of proteins has no known function.
Probab=36.93  E-value=30  Score=15.00  Aligned_cols=18  Identities=28%  Similarity=0.447  Sum_probs=6.6

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q ss_conf             9999999999999999999
Q 537021.9.peg.7   29 SFISFIGVMIGVMALIVVM   47 (270)
Q Consensus        29 s~ls~lgI~igv~~li~~l   47 (270)
                      +++|+++ +++-++++..+
T Consensus        24 a~iSils-ti~~a~l~~~v   41 (111)
T pfam11374        24 ALISILS-TIAKAALLFPV   41 (111)
T ss_pred             HHHHHHH-HHHHHHHHHHH
T ss_conf             9999999-99999999999


No 43 
>cd02784 MopB_CT_PHLH The MopB_CT_PHLH CD includes a group of related uncharacterized putative hydrogenase-like homologs (PHLH) of molybdopterin binding proteins. This CD is of the PHLH region homologous to the conserved molybdopterin-binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=36.87  E-value=22  Score=15.78  Aligned_cols=28  Identities=21%  Similarity=0.317  Sum_probs=23.8

Q ss_pred             CCCCCCHHHHHHHHHCCCCCEEEECCCC
Q ss_conf             2342101345455421333202311344
Q 537021.9.peg.7  147 GKGVIIGKDLARNLGISIGDKINILSPY  174 (270)
Q Consensus       147 ~~~iiiG~~lA~~L~l~vGD~i~l~~~~  174 (270)
                      .+.+.|+...|++|+++-||.++|....
T Consensus        37 DN~~~isp~~A~~lgi~~gd~v~l~~~~   64 (137)
T cd02784          37 DNAALVSPRTAEALGLLQGDVVRIRRGG   64 (137)
T ss_pred             CCCEEECHHHHHHHCCCCCCEEEEEECC
T ss_conf             4604589999998479778889999689


No 44 
>cd02791 MopB_CT_Nitrate-R-NapA-like Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol oxidation via a membrane-anchored tetraheme cytochrome. This CD (MopB_CT_Nitrate-R-Nap) is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs
Probab=36.43  E-value=20  Score=15.93  Aligned_cols=54  Identities=22%  Similarity=0.262  Sum_probs=36.6

Q ss_pred             CCCCCHHHHHHHHHCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCCEEEEEHHHHHH
Q ss_conf             342101345455421333202311344210001221100001221023310244555168985488999
Q 537021.9.peg.7  148 KGVIIGKDLARNLGISIGDKINILSPYGDVTPMGMGIRSKSYTVLGMFRMRFPDYDNGMVYMSLQEAQL  216 (270)
Q Consensus       148 ~~iiiG~~lA~~L~l~vGD~i~l~~~~~~~~~~~~~~~~~~f~V~GI~~sg~~~~D~~~v~~~l~~~q~  216 (270)
                      +-+-|...-|+++|++-||.|.+.++.+...            +.-...   ..+-...+|+|.-+...
T Consensus        35 ~~v~inp~dA~~~gi~dgd~V~v~s~~G~~~------------~~a~i~---~~v~~G~v~~p~~~~~~   88 (122)
T cd02791          35 PYVEIHPEDAARLGLKEGDLVRVTSRRGEVV------------LRVRVT---DRVRPGEVFVPMHWGDQ   88 (122)
T ss_pred             CEEEECHHHHHHCCCCCCCEEEEECCCEEEE------------EEEEEC---CCCCCCEEEEECCCCCC
T ss_conf             7899999999886998999999984880899------------999987---99789989985621654


No 45 
>pfam01568 Molydop_binding Molydopterin dinucleotide binding domain. This domain is found in various molybdopterin - containing oxidoreductases and tungsten formylmethanofuran dehydrogenase subunit d (FwdD) and molybdenum formylmethanofuran dehydrogenase subunit (FmdD); where the domain constitutes almost the entire subunit. The formylmethanofuran dehydrogenase catalyses the first step in methane formation from CO2 in methanogenic archaea and has a molybdopterin dinucleotide cofactor. This domain corresponds to the C-terminal domain IV in dimethyl sulfoxide (DMSO)reductase which interacts with the 2-amino pyrimidone ring of both molybdopterin guanine dinucleotide molecules.
Probab=36.02  E-value=21  Score=15.85  Aligned_cols=53  Identities=28%  Similarity=0.273  Sum_probs=36.2

Q ss_pred             CCCCHHHHHHHHHCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCCEEEEEHHHHHH
Q ss_conf             42101345455421333202311344210001221100001221023310244555168985488999
Q 537021.9.peg.7  149 GVIIGKDLARNLGISIGDKINILSPYGDVTPMGMGIRSKSYTVLGMFRMRFPDYDNGMVYMSLQEAQL  216 (270)
Q Consensus       149 ~iiiG~~lA~~L~l~vGD~i~l~~~~~~~~~~~~~~~~~~f~V~GI~~sg~~~~D~~~v~~~l~~~q~  216 (270)
                      .+.|....|++||++-||.|.+.++.+...            +.-.+..   .+-...+|+|.-+-..
T Consensus        31 ~v~i~p~dA~~lgi~~Gd~V~v~s~~G~~~------------~~a~i~~---~v~~g~v~~p~~~~~~   83 (110)
T pfam01568        31 FVEINPEDAAALGIKDGDLVEVTSRRGSVV------------VRAKVTD---RVRPGVVFMPFGWWAA   83 (110)
T ss_pred             EEEECHHHHHHCCCCCCCEEEEECCCEEEE------------EEEEECC---CCCCCEEEEECCCCCC
T ss_conf             799999999983998899999976898999------------9999899---8379989996765566


No 46 
>PRK10456 arginine succinyltransferase; Provisional
Probab=34.93  E-value=21  Score=15.83  Aligned_cols=17  Identities=0%  Similarity=-0.085  Sum_probs=9.0

Q ss_pred             CCCCEEEEEHHHHHHHC
Q ss_conf             55516898548899971
Q 537021.9.peg.7  202 YDNGMVYMSLQEAQLYF  218 (270)
Q Consensus       202 ~D~~~v~~~l~~~q~l~  218 (270)
                      .++..+.++-++++.|-
T Consensus       309 ~~~~~v~l~~~~a~aL~  325 (344)
T PRK10456        309 PATERLILTAAQLDALK  325 (344)
T ss_pred             CCCCEEEECHHHHHHCC
T ss_conf             66997986899998749


No 47 
>pfam01272 GreA_GreB Transcription elongation factor, GreA/GreB, C-term. This domain has a FKBP-like fold.
Probab=34.22  E-value=24  Score=15.49  Aligned_cols=28  Identities=29%  Similarity=0.635  Sum_probs=20.9

Q ss_pred             CCCCHHHHHHHH-HCCCCCEEEECCCCCC
Q ss_conf             421013454554-2133320231134421
Q 537021.9.peg.7  149 GVIIGKDLARNL-GISIGDKINILSPYGD  176 (270)
Q Consensus       149 ~iiiG~~lA~~L-~l~vGD~i~l~~~~~~  176 (270)
                      .|-+-+.+++.| |.++||++.+-.|.+.
T Consensus        39 ~IS~~SPlg~ALlG~~~Gd~v~~~~p~G~   67 (77)
T pfam01272        39 KISVLSPLGRALLGKKVGDEVEVTAPSGE   67 (77)
T ss_pred             CCCCCCHHHHHHHCCCCCCEEEEECCCCC
T ss_conf             22888988999739999999999969987


No 48 
>PRK11347 antitoxin ChpS; Provisional
Probab=32.59  E-value=28  Score=15.14  Aligned_cols=46  Identities=13%  Similarity=0.309  Sum_probs=29.4

Q ss_pred             CCCCCCHHHHHHHHHCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCEEE
Q ss_conf             2342101345455421333202311344210001221100001221023
Q 537021.9.peg.7  147 GKGVIIGKDLARNLGISIGDKINILSPYGDVTPMGMGIRSKSYTVLGMF  195 (270)
Q Consensus       147 ~~~iiiG~~lA~~L~l~vGD~i~l~~~~~~~~~~~~~~~~~~f~V~GI~  195 (270)
                      +-++.|-..+.+.|++++|+++.+...++..-   ..|..++|+..-.+
T Consensus        11 S~~~~iP~alL~~l~l~~G~~v~~~v~~g~lv---i~P~~~kYtL~eLl   56 (83)
T PRK11347         11 SAGMVIPNIVMKELNLQPGQSVEAQVSNNQLI---LTPISRRYSLDELL   56 (83)
T ss_pred             EEEEEECHHHHHHHCCCCCCEEEEEEECCEEE---EEECCCCCCHHHHH
T ss_conf             03687189999980999999988999899699---96478777899999


No 49 
>pfam04958 AstA Arginine N-succinyltransferase beta subunit. Arginine N-succinyltransferase EC:2.3.1.109 catalyses the transfer of succinyl-CoA to arginine to produce succinylarginine. This is the first step in arginine catabolism by the arginine succinyltransferase pathway.
Probab=31.98  E-value=27  Score=15.23  Aligned_cols=12  Identities=25%  Similarity=0.260  Sum_probs=5.3

Q ss_pred             EEEEEHHHHHHH
Q ss_conf             689854889997
Q 537021.9.peg.7  206 MVYMSLQEAQLY  217 (270)
Q Consensus       206 ~v~~~l~~~q~l  217 (270)
                      .+.++-++++.|
T Consensus       314 ~l~l~~~~a~~L  325 (338)
T pfam04958       314 TVVLSAEAADAL  325 (338)
T ss_pred             EEEECHHHHHHC
T ss_conf             599789999763


No 50 
>COG2002 AbrB Regulators of stationary/sporulation gene expression [Transcription]
Probab=30.99  E-value=27  Score=15.25  Aligned_cols=27  Identities=33%  Similarity=0.610  Sum_probs=22.9

Q ss_pred             CCCCCCCHHHHHHHHHCCCCCEEEECC
Q ss_conf             123421013454554213332023113
Q 537021.9.peg.7  146 RGKGVIIGKDLARNLGISIGDKINILS  172 (270)
Q Consensus       146 ~~~~iiiG~~lA~~L~l~vGD~i~l~~  172 (270)
                      ....|+|.+.+-+.||++.||.+.++.
T Consensus        12 ~~GqIvIPkeiR~~lgi~~Gd~lei~~   38 (89)
T COG2002          12 RKGQIVIPKEIREALGIKEGDVLEIIV   38 (89)
T ss_pred             CCCEEEEEHHHHHHCCCCCCCEEEEEE
T ss_conf             796599559999983999899899999


No 51 
>PRK11465 hypothetical protein; Provisional
Probab=30.75  E-value=14  Score=16.81  Aligned_cols=75  Identities=15%  Similarity=0.175  Sum_probs=40.5

Q ss_pred             CCCCCEEEECCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCCEEEEEHHHHHHHCCCCCCE--EEEEEEE---CCHHH
Q ss_conf             133320231134421000122110000122102331024455516898548899971899871--0799995---69889
Q 537021.9.peg.7  162 ISIGDKINILSPYGDVTPMGMGIRSKSYTVLGMFRMRFPDYDNGMVYMSLQEAQLYFNLENAV--SGIEVFV---KDPDA  236 (270)
Q Consensus       162 l~vGD~i~l~~~~~~~~~~~~~~~~~~f~V~GI~~sg~~~~D~~~v~~~l~~~q~l~~~~~~~--~~i~i~l---~d~~~  236 (270)
                      .++||.|++-.-.|  +       ..++.   +=.+..-+.|...-++|-+.....-|.....  ..+++.+   .|.++
T Consensus       574 ~~vGD~V~vgg~~G--t-------VE~is---lRs~~LRd~~G~~h~IP~s~I~~V~N~sr~~~~~~~~v~VaY~eDid~  641 (741)
T PRK11465        574 MNTGDLVTIGPLTG--T-------VERMS---IRSVGVRQDTGAYHIIPWSSITTFANFVRGIGSVVANYDVDRHEDADK  641 (741)
T ss_pred             CCCCCEEEECCCEE--E-------EEEEE---EEEEEEECCCCCEEEEECCCCCEEEECCCCCEEEEEEECCCCCCCHHH
T ss_conf             37799899889358--9-------99997---489999879987899748865345774776558999953478689999


Q ss_pred             HHHHHHHHHHHC
Q ss_conf             999999999861
Q 537021.9.peg.7  237 IEKTHENIVRIL  248 (270)
Q Consensus       237 ~~~~~~~i~~~l  248 (270)
                      +.++.+++-+.+
T Consensus       642 v~~vl~~~~~~l  653 (741)
T PRK11465        642 ANQALKDAVAEL  653 (741)
T ss_pred             HHHHHHHHHHHH
T ss_conf             999999999998


No 52 
>cd02783 MopB_CT_2 The MopB_CT_2 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=30.34  E-value=32  Score=14.80  Aligned_cols=32  Identities=28%  Similarity=0.313  Sum_probs=26.2

Q ss_pred             CCCCCCHHHHHHHHHCCCCCEEEECCCCCCCC
Q ss_conf             23421013454554213332023113442100
Q 537021.9.peg.7  147 GKGVIIGKDLARNLGISIGDKINILSPYGDVT  178 (270)
Q Consensus       147 ~~~iiiG~~lA~~L~l~vGD~i~l~~~~~~~~  178 (270)
                      .+.+-|....|+++|++-||.|.+.++.+...
T Consensus        31 ~N~L~i~p~~A~~~GI~dGDwV~VeS~~G~i~   62 (156)
T cd02783          31 RNYLYMHPKTAKELGIKDGDWVWVESVNGRVK   62 (156)
T ss_pred             CCEEEECHHHHHHCCCCCCCEEEEECCCCCEE
T ss_conf             98289899999985998698899975797499


No 53 
>PRK13657 cyclic beta-1,2-glucan ABC transporter; Provisional
Probab=29.95  E-value=39  Score=14.33  Aligned_cols=19  Identities=21%  Similarity=0.424  Sum_probs=11.5

Q ss_pred             HHHCCCCCEEEECCCCCCC
Q ss_conf             5421333202311344210
Q 537021.9.peg.7  159 NLGISIGDKINILSPYGDV  177 (270)
Q Consensus       159 ~L~l~vGD~i~l~~~~~~~  177 (270)
                      ++.++.|+++.+..|.|.+
T Consensus       355 sl~i~~Ge~vaiVG~SGsG  373 (585)
T PRK13657        355 SFEAKPGQTVAIVGPTGAG  373 (585)
T ss_pred             EEEECCCCEEEEECCCCCC
T ss_conf             3897599889998898986


No 54 
>TIGR00439 ftsX putative protein insertion permease FtsX; InterPro: IPR004513 FtsX is an integral membrane protein encoded in the same operon as signal recognition particle docking protein FtsY and FtsE. FtsE is a hydrophilic nucleotide-binding protein that associates with the inner membrane by means of association with FtsX; FtsE mutants are viable only in high salt, supporting possible roles in cell division, as previously indicated, or in transport.; GO: 0007049 cell cycle, 0016021 integral to membrane.
Probab=29.88  E-value=39  Score=14.33  Aligned_cols=75  Identities=9%  Similarity=0.131  Sum_probs=37.0

Q ss_pred             HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHCCCCCEEECCCC-CCCCHHHHHHHHHCCCCHHHHHHHHHCCCC
Q ss_conf             999999999999999-999999987699999631110245300000000-012136665554226410346654200111
Q 537021.9.peg.7   28 ASFISFIGVMIGVMA-LIVVMSVMNGFREDMIKRVLGINGHVVIQQKYY-PLVDYQFIANRLDFIPDVIKVLPFVSGQAF  105 (270)
Q Consensus        28 is~ls~lgI~igv~~-li~~lsv~~G~~~~i~~~i~~~~~~i~i~~~~~-~~~~~~~~~~~l~~~~~V~~~~p~i~~~~~  105 (270)
                      -|+||++-||++.+. .+.=|.+-|+  +....++. -.|+++|+-... ...+.+.+.++|++..+|+.+...-+..++
T Consensus        34 gTlLT~~viAvslTlP~v~Yl~~kn~--~~a~t~~y-pspqiTvYl~k~l~~~~a~~Vv~~l~~~kgve~~~y~sred~L  110 (314)
T TIGR00439        34 GTLLTVLVIAVSLTLPLVSYLVYKNV--QSALTQLY-PSPQITVYLEKALAEEDADTVVSKLRRDKGVEKINYISREDAL  110 (314)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHCC-CCCCHHHHHHHHHCHHHHHHHHHHHHHHCCCCHHHCCCHHHHH
T ss_conf             47999999999986579999998857--77742017-8840357877501344689999999874062021011356677


No 55 
>TIGR02066 dsrB sulfite reductase, dissimilatory-type beta subunit; InterPro: IPR011808    Dissimilatory sulphite reductase catalyzes the six-electron reduction of sulphite to sulphide, as the terminal reaction in dissimilatory sulphate reduction. It remains unclear however, whether trithionate and thiosulphate serve as intermediate compounds to sulphide, or as end products of sulphite reduction . Sulphite reductase is a multisubunit enzyme composed of dimers of either alpha/beta or alpha/beta/gamma subunits, each containing a siroheme and iron sulphur cluster prosthetic centre . Found in sulphate-reducing bacteria, these genes are commonly located in a unidirectional gene cluster . This entry describes the beta subunit of sulphite reductase.; GO: 0018551 hydrogensulfite reductase activity, 0051539 4 iron 4 sulfur cluster binding, 0006118 electron transport.
Probab=29.59  E-value=40  Score=14.30  Aligned_cols=41  Identities=10%  Similarity=0.270  Sum_probs=25.7

Q ss_pred             EEEEHHHHHHHCCCCCCE----------EEEEEEECCHHHHHHHHHHHHHH
Q ss_conf             898548899971899871----------07999956988999999999986
Q 537021.9.peg.7  207 VYMSLQEAQLYFNLENAV----------SGIEVFVKDPDAIEKTHENIVRI  247 (270)
Q Consensus       207 v~~~l~~~q~l~~~~~~~----------~~i~i~l~d~~~~~~~~~~i~~~  247 (270)
                      ++++..+++++-+..|++          ++|+..++|.+.++.++++|+++
T Consensus        41 a~vsV~tlr~lcDIADk~~dGylr~T~r~NvEFlv~d~~K~~~li~~L~~R   91 (366)
T TIGR02066        41 ALVSVDTLRKLCDIADKYGDGYLRWTIRNNVEFLVSDESKVQPLIDELEKR   91 (366)
T ss_pred             CEEEHHHHHHHHHHCHHHCCCCEEEEECCCEEEEECCHHHHHHHHHHHHHC
T ss_conf             256154565563001111576078741166568745878877999999718


No 56 
>cd02782 MopB_CT_1 The MopB_CT_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=28.90  E-value=36  Score=14.55  Aligned_cols=32  Identities=34%  Similarity=0.416  Sum_probs=26.6

Q ss_pred             CCCCCCHHHHHHHHHCCCCCEEEECCCCCCCC
Q ss_conf             23421013454554213332023113442100
Q 537021.9.peg.7  147 GKGVIIGKDLARNLGISIGDKINILSPYGDVT  178 (270)
Q Consensus       147 ~~~iiiG~~lA~~L~l~vGD~i~l~~~~~~~~  178 (270)
                      .+.+.|.-.-|++||++-||.|.|.++.+...
T Consensus        32 ~~~~~i~p~dA~~lgi~~Gd~V~v~s~~G~~~   63 (129)
T cd02782          32 RCTLRIHPDDAAALGLADGDKVRVTSAAGSVE   63 (129)
T ss_pred             CCEEEECHHHHHHCCCCCCCEEEEECCCEEEE
T ss_conf             97799999999886998999999986984799


No 57 
>TIGR00959 ffh signal recognition particle protein; InterPro: IPR004780    The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes , . SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor . In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane.    This entry represents various SRP subunits.; GO: 0008312 7S RNA binding, 0006614 SRP-dependent cotranslational protein targeting to membrane, 0048500 signal recognition particle.
Probab=28.65  E-value=15  Score=16.77  Aligned_cols=60  Identities=10%  Similarity=0.104  Sum_probs=43.9

Q ss_pred             CCCCEEEEEHHHHHHHCCCCCCEEEEEEEECCHHHHHHHHHHHHHHCCCCEEEEEHHHHHH
Q ss_conf             5551689854889997189987107999956988999999999986199859996899889
Q 537021.9.peg.7  202 YDNGMVYMSLQEAQLYFNLENAVSGIEVFVKDPDAIEKTHENIVRILGNGVVVIDWQQRYQ  262 (270)
Q Consensus       202 ~D~~~v~~~l~~~q~l~~~~~~~~~i~i~l~d~~~~~~~~~~i~~~l~~~~~v~~w~e~~~  262 (270)
                      +++--.|-|-.-|.++||+.|-+|=++ |.....|.+++++--++.....|...|..++-.
T Consensus       286 ~~dLe~FhP~R~A~RILGMGDv~SLvE-KA~~~~D~~~a~~~~~K~~~~~FdleDfl~Ql~  345 (439)
T TIGR00959       286 IEDLEPFHPDRMASRILGMGDVLSLVE-KAQEVVDEEEAKKLAEKMLKGQFDLEDFLEQLR  345 (439)
T ss_pred             CCCCCCCCHHHHHHHHCCCCCHHHHHH-HHHHHCCHHHHHHHHHHHHCCCCCHHHHHHHHH
T ss_conf             233124674789863236552236999-999851889999999986305889899999999


No 58 
>PRK08221 anaerobic sulfite reductase subunit B; Provisional
Probab=28.37  E-value=41  Score=14.21  Aligned_cols=30  Identities=30%  Similarity=0.535  Sum_probs=23.5

Q ss_pred             CCHHHHHHHHHCCCCCEEEECCCCCCCCCC
Q ss_conf             101345455421333202311344210001
Q 537021.9.peg.7  151 IIGKDLARNLGISIGDKINILSPYGDVTPM  180 (270)
Q Consensus       151 iiG~~lA~~L~l~vGD~i~l~~~~~~~~~~  180 (270)
                      ++|+....-.+++.||.+.+..|.++..+.
T Consensus        67 ~vG~gT~~L~~lk~Gd~l~v~GPlGngF~~   96 (263)
T PRK08221         67 RVGKVTDEIFTLKEGDKVFLRGPYGNGFPV   96 (263)
T ss_pred             EECHHHHHHHCCCCCCEEEEEECCCCCCCC
T ss_conf             488789999729998999997014897056


No 59 
>cd02794 MopB_CT_DmsA-EC The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a  predicted N-terminal iron-sulfur [4Fe-4S] cluster binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=28.34  E-value=36  Score=14.56  Aligned_cols=31  Identities=29%  Similarity=0.343  Sum_probs=25.9

Q ss_pred             CCCCCHHHHHHHHHCCCCCEEEECCCCCCCC
Q ss_conf             3421013454554213332023113442100
Q 537021.9.peg.7  148 KGVIIGKDLARNLGISIGDKINILSPYGDVT  178 (270)
Q Consensus       148 ~~iiiG~~lA~~L~l~vGD~i~l~~~~~~~~  178 (270)
                      +.+.|-..-|+++|++-||.|.+.++.+...
T Consensus        30 ~~v~i~p~DA~~~gi~dGd~V~v~n~~G~i~   60 (121)
T cd02794          30 QEVWINPLDAAARGIKDGDRVLVFNDRGKVI   60 (121)
T ss_pred             CEEEECHHHHHHCCCCCCCEEEEECCCCEEE
T ss_conf             6089899999983998999999981990699


No 60 
>cd02785 MopB_CT_4 The MopB_CT_4 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=28.08  E-value=35  Score=14.58  Aligned_cols=31  Identities=29%  Similarity=0.312  Sum_probs=25.9

Q ss_pred             CCCCCCHHHHHHHHHCCCCCEEEECCCCCCC
Q ss_conf             2342101345455421333202311344210
Q 537021.9.peg.7  147 GKGVIIGKDLARNLGISIGDKINILSPYGDV  177 (270)
Q Consensus       147 ~~~iiiG~~lA~~L~l~vGD~i~l~~~~~~~  177 (270)
                      .+.+-|...-|+++|++-||.|.+++..+..
T Consensus        31 ~p~v~i~p~dA~~~GI~dgd~V~v~n~rG~~   61 (124)
T cd02785          31 EPRVKINPIDAAARGIAHGDLVEVYNDRGSV   61 (124)
T ss_pred             CCEEEECHHHHHHCCCCCCCEEEEECCCEEE
T ss_conf             9879999999988499999999998599999


No 61 
>PRK09798 antitoxin MazE; Provisional
Probab=27.32  E-value=31  Score=14.89  Aligned_cols=29  Identities=28%  Similarity=0.343  Sum_probs=23.2

Q ss_pred             CCCCCCHHHHHHHHHCCCCCEEEECCCCC
Q ss_conf             23421013454554213332023113442
Q 537021.9.peg.7  147 GKGVIIGKDLARNLGISIGDKINILSPYG  175 (270)
Q Consensus       147 ~~~iiiG~~lA~~L~l~vGD~i~l~~~~~  175 (270)
                      +.+|=|.+.+++.+++..||.|.+....+
T Consensus        12 S~avRIP~~i~~~l~l~~~~~v~i~v~~g   40 (82)
T PRK09798         12 SPAVRIPATLMQALNLNIDDEVKIDLVDG   40 (82)
T ss_pred             CHHHHCCHHHHHHCCCCCCCEEEEEEECC
T ss_conf             68563479999984999999588999899


No 62 
>cd02788 MopB_CT_NDH-1_NuoG2-N7 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as a redox pump that uses the redox energy to translocate H+ ions across the membrane, resulting in a significant contribution to energy production. In Escherichia coli NDH-1, the largest subunit is encoded by the nuoG gene, and is part of the 14 distinct subunits constituting the functional enzyme. The NuoG subunit is made of two domains: the first contains three binding sites for FeS clusters (the fer2 domain), the second domain, is of unknown function or, as postulated, has lost an ancestral formate dehydrogenase activity that became redundant during the evolution of the complex I enzyme. Unique to this group, compared to the other prokaryotic and eukaryotic groups
Probab=26.86  E-value=37  Score=14.45  Aligned_cols=30  Identities=20%  Similarity=0.204  Sum_probs=24.7

Q ss_pred             CCCCCHHHHHHHHHCCCCCEEEECCCCCCC
Q ss_conf             342101345455421333202311344210
Q 537021.9.peg.7  148 KGVIIGKDLARNLGISIGDKINILSPYGDV  177 (270)
Q Consensus       148 ~~iiiG~~lA~~L~l~vGD~i~l~~~~~~~  177 (270)
                      ..+.|+..-|.+||++-||.+++....+..
T Consensus        29 p~~~l~~~dA~~Lgl~~G~~v~v~~~~g~~   58 (96)
T cd02788          29 PYARLSPADAARLGLADGDLVEFSLGDGTL   58 (96)
T ss_pred             CEEEECHHHHHHHCCCCCCEEEEEECCEEE
T ss_conf             579999989998199999989999899689


No 63 
>cd02779 MopB_CT_Arsenite-Ox This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of Arsenite oxidase (Arsenite-Ox) and related proteins. Arsenite oxidase oxidizes arsenite to the less toxic arsenate; it transfers the electrons obtained from the oxidation of arsenite towards the soluble periplasmic electron carriers cytochrome c and/or amicyanin.
Probab=26.81  E-value=38  Score=14.43  Aligned_cols=50  Identities=22%  Similarity=0.383  Sum_probs=33.1

Q ss_pred             CCCCHHHHHHHHHCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCCEEEEEHHH
Q ss_conf             42101345455421333202311344210001221100001221023310244555168985488
Q 537021.9.peg.7  149 GVIIGKDLARNLGISIGDKINILSPYGDVTPMGMGIRSKSYTVLGMFRMRFPDYDNGMVYMSLQE  213 (270)
Q Consensus       149 ~iiiG~~lA~~L~l~vGD~i~l~~~~~~~~~~~~~~~~~~f~V~GI~~sg~~~~D~~~v~~~l~~  213 (270)
                      -+-|.-.-|+++|++-||.|.+.+..+.....        ..|.       ...-...+|+|.-+
T Consensus        34 ~veinP~DA~~lgI~~Gd~V~v~s~rG~i~~~--------a~vt-------~~v~~G~vF~p~h~   83 (115)
T cd02779          34 YIEVNPEDAKREGLKNGDLVEVYNDYGSTTAM--------AYVT-------NTVKPGQTFMLMAH   83 (115)
T ss_pred             EEEECHHHHHHCCCCCCCEEEEECCCEEEEEE--------EEEC-------CCCCCCCEEEECCC
T ss_conf             99999999988599998999998799079999--------9988-------99799819997676


No 64 
>cd02777 MopB_CT_DMSOR-like The MopB_CT_DMSOR-like CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR),  trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its cellular location and oligomerization state are organism-dependent. For example, in Rhodobacter sphaeriodes and Rhodobacter capsulatus, it is an 82-kDa monomeric soluble protein found in the periplasmic space; in E. coli, it is membrane-bound and exists as a heterotrimer. BSOR catalyzes the reduction of biotin sulfixode to biotin, and is unique among Mo enzymes because no additional auxiliary proteins or cofactors are required. TMAOR is similar to DMSOR, but its only natural substrate is TMAO. Also included in this group is the pyrogallol-phloroglucinol transhydroxylase from Pelobacter acidigallici. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB hom
Probab=25.76  E-value=44  Score=14.04  Aligned_cols=31  Identities=29%  Similarity=0.299  Sum_probs=26.1

Q ss_pred             CCCCCHHHHHHHHHCCCCCEEEECCCCCCCC
Q ss_conf             3421013454554213332023113442100
Q 537021.9.peg.7  148 KGVIIGKDLARNLGISIGDKINILSPYGDVT  178 (270)
Q Consensus       148 ~~iiiG~~lA~~L~l~vGD~i~l~~~~~~~~  178 (270)
                      +.+.|...-|++++++-||.|.++++.+...
T Consensus        34 ~~v~inp~DA~~~gI~dGd~V~v~n~~G~i~   64 (127)
T cd02777          34 EPVWINPLDAAARGIKDGDIVRVFNDRGAVL   64 (127)
T ss_pred             CEEEECHHHHHHCCCCCCCEEEEECCCCEEE
T ss_conf             8599899999885998989999987896499


No 65 
>cd02793 MopB_CT_DMSOR-BSOR-TMAOR The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR),  trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its cellular location and oligomerization state are organism-dependent. For example, in Rhodobacter sphaeriodes and Rhodobacter capsulatus, it is an 82-kDa monomeric soluble protein found in the periplasmic space; in E. coli, it is membrane-bound and exists as a heterotrimer. BSOR catalyzes the reduction of biotin sulfixode to biotin, and is unique among Mo enzymes because no additional auxiliary proteins or cofactors are required. TMAOR is similar to DMSOR, but its only natural substrate is TMAO.This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=24.96  E-value=47  Score=13.86  Aligned_cols=31  Identities=23%  Similarity=0.304  Sum_probs=26.4

Q ss_pred             CCCCCHHHHHHHHHCCCCCEEEECCCCCCCC
Q ss_conf             3421013454554213332023113442100
Q 537021.9.peg.7  148 KGVIIGKDLARNLGISIGDKINILSPYGDVT  178 (270)
Q Consensus       148 ~~iiiG~~lA~~L~l~vGD~i~l~~~~~~~~  178 (270)
                      +.+.|...-|+++|++-||.|.++...+...
T Consensus        33 ~~v~i~p~DA~~~GI~dGd~V~V~n~rG~v~   63 (129)
T cd02793          33 EPIRINPADAAARGIADGDIVRVFNDRGACL   63 (129)
T ss_pred             CEEEECHHHHHHCCCCCCCEEEEECCCCEEE
T ss_conf             7599999999885998989999988895699


No 66 
>TIGR02160 PA_CoA_Oxy5 phenylacetate-CoA oxygenase/reductase, PaaK subunit; InterPro: IPR011884 Phenylacetate-CoA oxygenase is comprised of a five gene complex responsible for the hydroxylation of phenylacetate-CoA (PA-CoA) as the second catabolic step in phenylacetic acid (PA) degradation , . Although the exact function of this enzyme has not been determined, it has been shown to be required for phenylacetic acid degradation and has been proposed to function in a multicomponent oxygenase acting on phenylacetate-CoA .    .
Probab=23.88  E-value=36  Score=14.52  Aligned_cols=31  Identities=26%  Similarity=0.403  Sum_probs=22.4

Q ss_pred             HHHHHHHHCCCCCEEEECCCCCCCCCCCCCC
Q ss_conf             3454554213332023113442100012211
Q 537021.9.peg.7  154 KDLARNLGISIGDKINILSPYGDVTPMGMGI  184 (270)
Q Consensus       154 ~~lA~~L~l~vGD~i~l~~~~~~~~~~~~~~  184 (270)
                      +.-|+.-|++.||++.++.|+|..+.....+
T Consensus        78 S~wa~d~Gir~GdtlEVM~P~G~F~~~~~~~  108 (371)
T TIGR02160        78 STWANDEGIRAGDTLEVMAPQGRFTSKLDAE  108 (371)
T ss_pred             EHHHHCCCCCCCCEEEEECCCCCCCCCCCCC
T ss_conf             3211118704488788716789778888722


No 67 
>TIGR01393 lepA GTP-binding protein LepA; InterPro: IPR006297   LepA (GUF1 in Saccaromyces) is a GTP-binding membrane protein related to EF-G and EF-Tu. Two types of phylogenetic tree, rooted by other GTP-binding proteins, suggest that eukaryotic homologs (including GUF1 of yeast) originated within the bacterial LepA family. The function of the proteins in this family are unknown. ; GO: 0005525 GTP binding.
Probab=23.78  E-value=30  Score=14.99  Aligned_cols=43  Identities=14%  Similarity=0.231  Sum_probs=22.1

Q ss_pred             HHHHHHHHCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCEEEEE
Q ss_conf             34545542133320231134421000122110000122102331
Q 537021.9.peg.7  154 KDLARNLGISIGDKINILSPYGDVTPMGMGIRSKSYTVLGMFRM  197 (270)
Q Consensus       154 ~~lA~~L~l~vGD~i~l~~~~~~~~~~~~~~~~~~f~V~GI~~s  197 (270)
                      ..+=+--+++||||||..--. -..|..-+=+.+.+.-+|+|-.
T Consensus       262 AgIK~v~D~~VGDTiT~~~~P-a~eplpGF~~~KP~VFaGlYPi  304 (598)
T TIGR01393       262 AGIKDVSDVKVGDTITSVKNP-AKEPLPGFKEVKPMVFAGLYPI  304 (598)
T ss_pred             EEEEECCCEECCCEEECCCCC-CCCCCCCCCCCCCEEEECCCCC
T ss_conf             865310411205445256787-3767888612576586012588


No 68 
>TIGR02624 rhamnu_1P_ald rhamnulose-1-phosphate aldolase; InterPro: IPR013447    Proteins in this entry match the enzyme RhaD, rhamnulose-1-phosphate aldolase (4.1.2.19 from EC).; GO: 0008994 rhamnulose-1-phosphate aldolase activity.
Probab=23.40  E-value=40  Score=14.28  Aligned_cols=28  Identities=25%  Similarity=0.499  Sum_probs=18.8

Q ss_pred             CCCCCCC-----EEEEEECCCCCCCEEEEEHHHHHH
Q ss_conf             0001221-----023310244555168985488999
Q 537021.9.peg.7  186 SKSYTVL-----GMFRMRFPDYDNGMVYMSLQEAQL  216 (270)
Q Consensus       186 ~~~f~V~-----GI~~sg~~~~D~~~v~~~l~~~q~  216 (270)
                      .++..++     |||.+| ..+|+.+-  =++||+|
T Consensus       201 M~e~rLv~WP~HGifGaG-~~lDe~FG--LIeTaEK  233 (273)
T TIGR02624       201 MKEYRLVLWPHHGIFGAG-PSLDETFG--LIETAEK  233 (273)
T ss_pred             HHHCCEEEECCCCEECCC-CCHHHHCC--HHHHHHH
T ss_conf             731878884487730378-76334406--0778889


No 69 
>cd07047 BMC_PduB_repeat1 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 1. PduB proteins are homologs of the carboxysome shell protein. They are encoded within the pdu operon and might be required for the formation of the outer shell of the bacterial pdu polyhedral organelles involved in coenzyme B12-dependent degradation of 1,2-propanediol. Although it has been suggested that PduB might form hexamers and further assemble into the flat facets of the polyhedral outer shell of pdu organelles at present no experimental evidence directly supports this view. PduB proteins contain two tandem BMC domains repeats. This CD contains repeat 1 (the first BMC domain of PduB).
Probab=21.96  E-value=56  Score=13.47  Aligned_cols=89  Identities=19%  Similarity=0.207  Sum_probs=49.9

Q ss_pred             HCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCEEEEEEC---CC---CCC-----CEEEEEHHHHHHHCCCCCCEEEEEE
Q ss_conf             213332023113442100012211000012210233102---44---555-----1689854889997189987107999
Q 537021.9.peg.7  161 GISIGDKINILSPYGDVTPMGMGIRSKSYTVLGMFRMRF---PD---YDN-----GMVYMSLQEAQLYFNLENAVSGIEV  229 (270)
Q Consensus       161 ~l~vGD~i~l~~~~~~~~~~~~~~~~~~f~V~GI~~sg~---~~---~D~-----~~v~~~l~~~q~l~~~~~~~~~i~i  229 (270)
                      +..+||+|-+..|+-+.......--.++|+..||+.+..   +.   .|+     |.=+++++..+.--+..+.-+-|.+
T Consensus         5 Gta~gdTIGlvI~nvd~~l~~~m~~~k~yrsiGIis~RtGAgpqimA~DEAVKatNtEvi~iElpRDTkGgaGHG~lii~   84 (134)
T cd07047           5 GTAIGDTIGLVIANVDPLLLEKMKLDKKYRSIGILGARTGAGPQIMAADEAVKATNTEVISIELPRDTKGGAGHGSLILF   84 (134)
T ss_pred             ECCCCCEEEEEECCCCHHHHHHHCCCCCEEEEEEEECCCCCCCHHHHHHHHHHHCCCEEEEEECCCCCCCCCCCCEEEEE
T ss_conf             10247646899448898999972899641478887136686513211667774147468999803237898765049998


Q ss_pred             EECCHHHHHHHH----HHHHHHCC
Q ss_conf             956988999999----99998619
Q 537021.9.peg.7  230 FVKDPDAIEKTH----ENIVRILG  249 (270)
Q Consensus       230 ~l~d~~~~~~~~----~~i~~~l~  249 (270)
                      -..|+.++....    +++.+.++
T Consensus        85 Ga~dvsD~rravevaL~~~~~~fg  108 (134)
T cd07047          85 GAEDVSDVRRAVEVALSETEKTFG  108 (134)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHHHH
T ss_conf             068678999999999998787765


No 70 
>PRK05753 nucleoside diphosphate kinase regulator; Provisional
Probab=20.70  E-value=59  Score=13.31  Aligned_cols=37  Identities=30%  Similarity=0.428  Sum_probs=25.4

Q ss_pred             CCCCHHHHHHHH-HCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCEE
Q ss_conf             421013454554-2133320231134421000122110000122102
Q 537021.9.peg.7  149 GVIIGKDLARNL-GISIGDKINILSPYGDVTPMGMGIRSKSYTVLGM  194 (270)
Q Consensus       149 ~iiiG~~lA~~L-~l~vGD~i~l~~~~~~~~~~~~~~~~~~f~V~GI  194 (270)
                      .|-+-+.++.-| |+++||.+..-.|.|.         .++++|..|
T Consensus        88 kISv~SPiG~ALlG~~~Gd~i~~~~P~G~---------~~~l~I~~V  125 (135)
T PRK05753         88 QVSVLAPVGAALLGLSVGQSIDWPLPGGK---------ETHLTVLEV  125 (135)
T ss_pred             CCCCCCHHHHHHHCCCCCCEEEEECCCCC---------EEEEEEEEE
T ss_conf             20101699999738999999999889997---------789999999


Done!