Query psy10096
Match_columns 125
No_of_seqs 110 out of 488
Neff 6.4
Searched_HMMs 46136
Date Fri Aug 16 17:46:17 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy10096.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/10096hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1053|consensus 99.9 1.9E-25 4.2E-30 196.2 3.4 107 3-125 705-822 (1258)
2 KOG1054|consensus 99.8 1.3E-19 2.7E-24 155.2 5.8 96 1-98 686-798 (897)
3 KOG4440|consensus 99.8 5.2E-19 1.1E-23 152.2 4.1 89 6-108 711-801 (993)
4 smart00079 PBPe Eukaryotic hom 99.3 9.8E-12 2.1E-16 86.6 7.3 72 19-92 49-132 (134)
5 KOG1052|consensus 99.1 2.5E-10 5.4E-15 98.9 7.1 85 6-94 472-573 (656)
6 PRK10797 glutamate and asparta 97.4 0.00024 5.2E-09 56.6 5.2 95 20-116 183-299 (302)
7 PRK09495 glnH glutamine ABC tr 97.2 0.00047 1E-08 52.4 4.3 71 21-93 158-243 (247)
8 PRK11260 cystine transporter s 97.0 0.0013 2.7E-08 50.7 4.6 71 21-93 176-261 (266)
9 TIGR01096 3A0103s03R lysine-ar 97.0 0.0015 3.3E-08 49.1 4.9 59 20-78 158-225 (250)
10 PRK11917 bifunctional adhesin/ 96.9 0.00099 2.2E-08 51.7 3.6 56 20-77 178-234 (259)
11 PF00497 SBP_bac_3: Bacterial 96.9 0.00099 2.1E-08 48.3 3.1 72 19-92 136-223 (225)
12 PRK15007 putative ABC transpor 95.9 0.014 3.1E-07 43.8 4.5 56 21-76 153-214 (243)
13 PRK09959 hybrid sensory histid 95.7 0.011 2.4E-07 54.4 3.9 74 19-94 432-521 (1197)
14 COG0834 HisJ ABC-type amino ac 95.3 0.019 4.1E-07 43.4 3.3 73 19-93 173-264 (275)
15 cd00134 PBPb Bacterial peripla 95.3 0.055 1.2E-06 38.0 5.5 59 18-76 129-191 (218)
16 smart00062 PBPb Bacterial peri 95.2 0.062 1.3E-06 37.5 5.5 57 20-76 132-192 (219)
17 PRK10859 membrane-bound lytic 95.0 0.033 7.2E-07 47.2 4.4 72 21-94 181-267 (482)
18 TIGR03871 ABC_peri_MoxJ_2 quin 94.3 0.066 1.4E-06 39.8 4.1 54 23-76 142-203 (232)
19 PRK09959 hybrid sensory histid 94.1 0.056 1.2E-06 49.8 4.0 73 19-94 189-278 (1197)
20 TIGR02995 ectoine_ehuB ectoine 94.1 0.074 1.6E-06 41.2 4.1 70 20-91 171-259 (275)
21 PRK15010 ABC transporter lysin 94.1 0.1 2.2E-06 40.0 4.8 71 21-93 162-254 (260)
22 TIGR03870 ABC_MoxJ methanol ox 93.3 0.23 5E-06 37.9 5.5 54 24-77 152-218 (246)
23 TIGR01098 3A0109s03R phosphate 92.7 0.28 6.1E-06 37.0 5.1 54 21-74 180-238 (254)
24 TIGR02285 conserved hypothetic 92.7 0.14 3E-06 39.4 3.5 70 21-92 169-260 (268)
25 PRK15437 histidine ABC transpo 91.7 0.39 8.4E-06 36.7 4.9 73 20-94 161-255 (259)
26 PF00405 Transferrin: Transfer 74.9 11 0.00024 30.7 6.2 57 21-78 34-100 (330)
27 PRK00489 hisG ATP phosphoribos 70.4 5.4 0.00012 31.5 3.4 70 21-97 140-223 (287)
28 PF09084 NMT1: NMT1/THI5 like; 54.8 53 0.0012 23.7 6.1 57 21-78 28-86 (216)
29 TIGR03431 PhnD phosphonate ABC 53.8 38 0.00083 26.1 5.4 53 23-75 176-234 (288)
30 PRK01906 tetraacyldisaccharide 41.3 34 0.00074 28.2 3.4 54 22-78 134-190 (338)
31 TIGR03261 phnS2 putative 2-ami 39.6 99 0.0021 24.4 5.8 69 9-78 186-260 (334)
32 PF12974 Phosphonate-bd: ABC t 39.4 65 0.0014 24.1 4.5 63 21-86 36-104 (243)
33 smart00094 TR_FER Transferrin. 36.5 1E+02 0.0023 25.3 5.6 57 21-78 34-99 (332)
34 TIGR01728 SsuA_fam ABC transpo 34.0 94 0.002 23.1 4.7 55 23-78 38-94 (288)
35 PF02606 LpxK: Tetraacyldisacc 31.8 55 0.0012 26.7 3.2 55 22-78 114-170 (326)
36 COG1663 LpxK Tetraacyldisaccha 31.7 67 0.0015 26.7 3.7 61 16-78 120-183 (336)
37 PRK05773 3,4-dihydroxy-2-butan 30.7 52 0.0011 25.6 2.8 21 23-43 2-22 (219)
38 PRK00910 ribB 3,4-dihydroxy-2- 29.9 24 0.00051 27.6 0.7 54 21-78 14-67 (218)
39 TIGR00506 ribB 3,4-dihydroxy-2 29.3 58 0.0013 25.0 2.8 23 21-43 2-24 (199)
40 PRK00652 lpxK tetraacyldisacch 27.0 66 0.0014 26.3 2.9 55 22-78 128-184 (325)
41 COG0687 PotD Spermidine/putres 26.8 3.4E+02 0.0074 21.9 7.2 76 3-78 201-282 (363)
42 TIGR00682 lpxK tetraacyldisacc 26.3 74 0.0016 25.8 3.0 55 22-78 107-163 (311)
43 PRK00014 ribB 3,4-dihydroxy-2- 25.3 31 0.00066 27.2 0.6 53 22-78 19-71 (230)
44 TIGR01256 modA molybdenum ABC 24.8 1.5E+02 0.0032 21.6 4.3 57 20-78 134-193 (216)
45 PF12849 PBP_like_2: PBP super 23.7 1.8E+02 0.0039 22.1 4.7 58 21-78 44-110 (281)
46 PRK01792 ribB 3,4-dihydroxy-2- 23.2 36 0.00077 26.5 0.6 54 21-78 13-66 (214)
47 PRK11553 alkanesulfonate trans 22.9 2.9E+02 0.0062 21.4 5.8 55 23-78 65-122 (314)
48 cd08427 PBP2_LTTR_like_2 The C 22.1 2.3E+02 0.005 18.9 4.6 58 20-78 127-185 (195)
49 TIGR03499 FlhF flagellar biosy 21.8 83 0.0018 24.8 2.5 25 21-45 8-34 (282)
50 TIGR03339 phn_lysR aminoethylp 20.3 2.2E+02 0.0049 21.0 4.5 49 22-78 120-169 (279)
No 1
>KOG1053|consensus
Probab=99.91 E-value=1.9e-25 Score=196.23 Aligned_cols=107 Identities=27% Similarity=0.512 Sum_probs=95.4
Q ss_pred hHHHHHHHHHHhcCCCccccCHHHHHHHHhcCC-cEEEeehhhhHHHHhcC--CceeEec--cccCccceEEEecCCCCC
Q psy10096 3 DTYKKMWRYMENKKPSVFVSTYKEGIDRVLEGN-YAFLMESTMLDYIVQRN--CNLTQIG--GLLDSKGYGIATPMGHSG 77 (125)
Q Consensus 3 ~~y~~m~~~M~~~~~~~~v~~~~eGv~~vr~g~-~AfI~d~~~l~Y~~~~~--C~L~~vg--~~f~~~gYgialp~gSpl 77 (125)
..|++||+||.+++ +.++++||+.||+|+ +|||||.++|+|.+.+| |.|++|| +.|...|||||+||||||
T Consensus 705 ~Nyp~MHeYM~kyN----q~~v~dal~sLK~gKLDAFIyDaAVLnY~agkDegCKLvTIGsgKvFAttGYGIal~k~Spw 780 (1258)
T KOG1053|consen 705 SNYPEMHEYMVKYN----QPGVEDALESLKNGKLDAFIYDAAVLNYMAGKDEGCKLVTIGSGKVFATTGYGIALPKNSPW 780 (1258)
T ss_pred hccHHHHHHHHHhc----cCchHHHHHHHhcccchhHHHHHHHHHHhhccCCCceEEEecCCceeeecceeeecCCCCcc
Confidence 46899999999987 799999999999999 99999999999999665 9999999 999999999999999999
Q ss_pred cc-ccccccccccccccccCcCCCCccccchh-----hhhhhccccccccccCC
Q psy10096 78 LV-GHIACWRWDDYFWSYNNVHSSGHWRDMEE-----IQHETQGKKEVQTSQYN 125 (125)
Q Consensus 78 ~~-g~l~~l~~~~kw~~~~c~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~ 125 (125)
++ -++..|+ ....|+||+||. ||| ++|||||||||.
T Consensus 781 kr~IdlallQ----------y~gdGeme~Le~~Wltgic~--n~k~evmSsqLd 822 (1258)
T KOG1053|consen 781 KRQIDLALLQ----------YLGDGEMEMLETLWLTGICH--NSKNEVMSSQLD 822 (1258)
T ss_pred hhhHHHHHHH----------HhccchHHHHHHHHhhcccc--cchhhhhhcccC
Confidence 93 4555666 667777887776 489 999999999983
No 2
>KOG1054|consensus
Probab=99.78 E-value=1.3e-19 Score=155.23 Aligned_cols=96 Identities=50% Similarity=0.843 Sum_probs=89.4
Q ss_pred CchHHHHHHHHHHhcCCCccccCHHHHHHHHhc--CCcEEEeehhhhHHHHhc-CCceeEeccccCccceEEEecCCCCC
Q psy10096 1 MIDTYKKMWRYMENKKPSVFVSTYKEGIDRVLE--GNYAFLMESTMLDYIVQR-NCNLTQIGGLLDSKGYGIATPMGHSG 77 (125)
Q Consensus 1 ~~~~y~~m~~~M~~~~~~~~v~~~~eGv~~vr~--g~~AfI~d~~~l~Y~~~~-~C~L~~vg~~f~~~gYgialp~gSpl 77 (125)
|++.|.+||.+|+...|++||.++.|||.|||+ |+|||+.++...+|..++ +|+.+.||..++..|||||.|+||.|
T Consensus 686 kiavy~kMW~yM~SaepsVFv~t~aeGv~rVRksKGkyAfLLEsTmNey~eqRkPCDTMKVGgNLds~GYGiATp~Gssl 765 (897)
T KOG1054|consen 686 KIAVYEKMWTYMKSAEPSVFVRTTAEGVARVRKSKGKYAFLLESTMNEYIEQRKPCDTMKVGGNLDSKGYGIATPKGSSL 765 (897)
T ss_pred hHHHHHHHHHHHhcCCcceeeehhhhHHHHHHhcCCceEeehHhhhhhhhhccCCccceecccccCCcceeecCCCCccc
Confidence 468999999999999999999999999999995 779999999999999965 69999999999999999999999999
Q ss_pred c------------ccccccccccccccc--ccCcC
Q psy10096 78 L------------VGHIACWRWDDYFWS--YNNVH 98 (125)
Q Consensus 78 ~------------~g~l~~l~~~~kw~~--~~c~~ 98 (125)
+ .|+|++|+ +|||= +.|..
T Consensus 766 r~~vNLAvLkL~E~G~LdKLk--NKWWYDkGeC~s 798 (897)
T KOG1054|consen 766 RNAVNLAVLKLNEQGLLDKLK--NKWWYDKGECGS 798 (897)
T ss_pred ccchhhhhhhhcccchHHHhh--hhhcccccccCC
Confidence 9 69999999 99994 57875
No 3
>KOG4440|consensus
Probab=99.75 E-value=5.2e-19 Score=152.16 Aligned_cols=89 Identities=27% Similarity=0.486 Sum_probs=80.6
Q ss_pred HHHHHHHHhcCCCccccCHHHHHHHHhcCC-cEEEeehhhhHHHHhcCCceeEeccccCccceEEEecCCCCCc-ccccc
Q psy10096 6 KKMWRYMENKKPSVFVSTYKEGIDRVLEGN-YAFLMESTMLDYIVQRNCNLTQIGGLLDSKGYGIATPMGHSGL-VGHIA 83 (125)
Q Consensus 6 ~~m~~~M~~~~~~~~v~~~~eGv~~vr~g~-~AfI~d~~~l~Y~~~~~C~L~~vg~~f~~~gYgialp~gSpl~-~g~l~ 83 (125)
..||++|++++ +.+..|+|+.|++|+ .|||||+..|+|.+.++|+|.+.|+.|+..||||+++|||||+ .--|.
T Consensus 711 S~MyR~ME~hN----y~~A~eAiq~v~~gkL~AFIWDS~rLEfEAs~~CeLvT~GeLFgRSgyGIGlqK~SPWt~~vtla 786 (993)
T KOG4440|consen 711 STMYRHMEKHN----YESAAEAIQAVRDGKLHAFIWDSARLEFEASQKCELVTTGELFGRSGYGIGLQKDSPWTQNVTLA 786 (993)
T ss_pred HHHHHhhhhcc----hhhHHHHHHHHHcCceeEEEeecceeeehhhcccceEeccccccccccccccccCCCCcchhhHH
Confidence 57999999987 789999999999999 9999999999999999999999999999999999999999999 23345
Q ss_pred ccccccccccccCcCCCCccccchh
Q psy10096 84 CWRWDDYFWSYNNVHSSGHWRDMEE 108 (125)
Q Consensus 84 ~l~~~~kw~~~~c~~~~~~~~~~~~ 108 (125)
.|+ ++++|+||.|+.
T Consensus 787 IL~----------~hEsGfMEkLDk 801 (993)
T KOG4440|consen 787 ILK----------SHESGFMEKLDK 801 (993)
T ss_pred HHH----------hhhcchHHHHHH
Confidence 555 888888888887
No 4
>smart00079 PBPe Eukaryotic homologues of bacterial periplasmic substrate binding proteins. Prokaryotic homologues are represented by a separate alignment: PBPb
Probab=99.30 E-value=9.8e-12 Score=86.56 Aligned_cols=72 Identities=47% Similarity=0.847 Sum_probs=64.8
Q ss_pred ccccCHHHHHHHHhcCCcEEEeehhhhHHHHhcCCceeEeccccCccceEEEecCCCCCc------------cccccccc
Q psy10096 19 VFVSTYKEGIDRVLEGNYAFLMESTMLDYIVQRNCNLTQIGGLLDSKGYGIATPMGHSGL------------VGHIACWR 86 (125)
Q Consensus 19 ~~v~~~~eGv~~vr~g~~AfI~d~~~l~Y~~~~~C~L~~vg~~f~~~gYgialp~gSpl~------------~g~l~~l~ 86 (125)
..+++..+++..|++|++|++.|.+++.|++.+.|++.++|..|...+||||+|+|++|+ +|.++.+.
T Consensus 49 ~~~~~~~~~~~~l~~g~da~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~ia~~k~~~l~~~vn~~l~~l~~~G~~~~l~ 128 (134)
T smart00079 49 VFVKSYAEGVQRVRVSNYAFLMESTYLDYELSQNCDLMTVGENFGRKGYGIAFPKGSPLRDDLSRAILKLSESGELQKLE 128 (134)
T ss_pred CCCCCHHHHHHHHHcCCCEEEeehHhHHHHHhCCCCeEEcCcccCCCceEEEecCCCHHHHHHHHHHHHHHhcCcHHHHH
Confidence 357889999999999989999999999999877899999999999999999999999998 57777777
Q ss_pred cccccc
Q psy10096 87 WDDYFW 92 (125)
Q Consensus 87 ~~~kw~ 92 (125)
++|+
T Consensus 129 --~kw~ 132 (134)
T smart00079 129 --NKWW 132 (134)
T ss_pred --Hhhc
Confidence 7775
No 5
>KOG1052|consensus
Probab=99.08 E-value=2.5e-10 Score=98.94 Aligned_cols=85 Identities=33% Similarity=0.626 Sum_probs=76.6
Q ss_pred HHHHHHHHhcCCCccccCHHHHHHHHhcC---CcEEEeehhhhHHHHhcC--CceeEeccccCccceEEEecCCCCCc--
Q psy10096 6 KKMWRYMENKKPSVFVSTYKEGIDRVLEG---NYAFLMESTMLDYIVQRN--CNLTQIGGLLDSKGYGIATPMGHSGL-- 78 (125)
Q Consensus 6 ~~m~~~M~~~~~~~~v~~~~eGv~~vr~g---~~AfI~d~~~l~Y~~~~~--C~L~~vg~~f~~~gYgialp~gSpl~-- 78 (125)
++||..|.. ++...+.+.+||++++++| .+||+.+...+.|...++ |++..+|..|...+|| |+|+||||+
T Consensus 472 ~~~~~~~~~-~~~~~~~~~~e~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~v~~~~~~~~~~-~~~~~Spl~~~ 549 (656)
T KOG1052|consen 472 EDMWAFKVS-QRSVPLASPEEGVERVRKGPSGGYAFASDELYLAYLFLRDEICDLTEVGEPFLYKGYG-AFPKGSPLRSL 549 (656)
T ss_pred HHHHhhhcc-CCCccCCCHHHHHHHHHcCCCCceEEEeccHHHHHHHhhcCCCceEEeCCcccCCCcc-eecCCCccHHH
Confidence 356888876 5788899999999999999 499999999999999776 9999999999999999 999999999
Q ss_pred ----------cccccccccccccccc
Q psy10096 79 ----------VGHIACWRWDDYFWSY 94 (125)
Q Consensus 79 ----------~g~l~~l~~~~kw~~~ 94 (125)
.|.+.+++ .+||..
T Consensus 550 is~~Il~l~e~g~l~~~~--~kw~~~ 573 (656)
T KOG1052|consen 550 ISRAILKLQETGILQKLK--RKWFSK 573 (656)
T ss_pred HHHHHHhhccccHHHHHH--HHhccC
Confidence 58888888 999973
No 6
>PRK10797 glutamate and aspartate transporter subunit; Provisional
Probab=97.44 E-value=0.00024 Score=56.56 Aligned_cols=95 Identities=17% Similarity=0.223 Sum_probs=70.4
Q ss_pred cccCHHHHHHHHhcCC-cEEEeehhhhHHHHh-c--CCceeEeccccCccceEEEecCCCC-Cc------------cccc
Q psy10096 20 FVSTYKEGIDRVLEGN-YAFLMESTMLDYIVQ-R--NCNLTQIGGLLDSKGYGIATPMGHS-GL------------VGHI 82 (125)
Q Consensus 20 ~v~~~~eGv~~vr~g~-~AfI~d~~~l~Y~~~-~--~C~L~~vg~~f~~~gYgialp~gSp-l~------------~g~l 82 (125)
.+++..++++.|.+|+ +|++.|.+++.+.+. + .-.+.++|..+....||+++++++| |. .|.+
T Consensus 183 ~~~~~~~~l~~L~~GrvDa~i~d~~~~~~~~~~~~~~~~l~i~~~~~~~~~~~~a~~k~~~~L~~~in~~L~~l~~~G~l 262 (302)
T PRK10797 183 SAKDHGDSFRTLESGRAVAFMMDDALLAGERAKAKKPDNWEIVGKPQSQEAYGCMLRKDDPQFKKLMDDTIAQAQTSGEA 262 (302)
T ss_pred EeCCHHHHHHHHHcCCceEEEccHHHHHHHHHcCCCCcceEECCccCCcCceeEEEeCCCHHHHHHHHHHHHHHHhCchH
Confidence 3578899999999999 999999998876543 2 2457888988889999999999887 33 6899
Q ss_pred ccccccccccccc----CcC-CCCccccchhhhhhhccc
Q psy10096 83 ACWRWDDYFWSYN----NVH-SSGHWRDMEEIQHETQGK 116 (125)
Q Consensus 83 ~~l~~~~kw~~~~----c~~-~~~~~~~~~~~~~~~~~~ 116 (125)
+.+. ++|...+ -.+ .-+-.+++..|..|.+.|
T Consensus 263 ~~i~--~kw~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 299 (302)
T PRK10797 263 EKWF--DKWFKNPIPPKNLNMNFELSDEMKALFKEPNDK 299 (302)
T ss_pred HHHH--HHHcCCCCCCccccccCCCcHHHHHHhhCcccc
Confidence 9999 9998632 222 333445666666665554
No 7
>PRK09495 glnH glutamine ABC transporter periplasmic protein; Reviewed
Probab=97.22 E-value=0.00047 Score=52.37 Aligned_cols=71 Identities=20% Similarity=0.306 Sum_probs=57.0
Q ss_pred ccCHHHHHHHHhcCC-cEEEeehhhhHHHHhcC--CceeEeccccCccceEEEecCCCCCc------------ccccccc
Q psy10096 21 VSTYKEGIDRVLEGN-YAFLMESTMLDYIVQRN--CNLTQIGGLLDSKGYGIATPMGHSGL------------VGHIACW 85 (125)
Q Consensus 21 v~~~~eGv~~vr~g~-~AfI~d~~~l~Y~~~~~--C~L~~vg~~f~~~gYgialp~gSpl~------------~g~l~~l 85 (125)
+++..++++++..|+ +|++.+...+.|+.++. -.+..++..+....|+||+++++.+. +|.++.+
T Consensus 158 ~~~~~~~~~~L~~grvDa~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~l~~~~n~al~~~~~~g~~~~i 237 (247)
T PRK09495 158 FPNIDNAYLELGTGRADAVLHDTPNILYFIKTAGNGQFKAVGDSLEAQQYGIAFPKGSELREKVNGALKTLKENGTYAEI 237 (247)
T ss_pred cCCHHHHHHHHHcCceeEEEeChHHHHHHHHhCCCCceEEecCcccccceEEEEcCcHHHHHHHHHHHHHHHHCCcHHHH
Confidence 578889999999999 99999999999888653 35777787778889999999998665 4666666
Q ss_pred cccccccc
Q psy10096 86 RWDDYFWS 93 (125)
Q Consensus 86 ~~~~kw~~ 93 (125)
. ++|..
T Consensus 238 ~--~k~~~ 243 (247)
T PRK09495 238 Y--KKWFG 243 (247)
T ss_pred H--HHHcC
Confidence 6 66653
No 8
>PRK11260 cystine transporter subunit; Provisional
Probab=96.96 E-value=0.0013 Score=50.73 Aligned_cols=71 Identities=15% Similarity=0.244 Sum_probs=56.1
Q ss_pred ccCHHHHHHHHhcCC-cEEEeehhhhHHHHhcCCc-eeEeccccCccceEEEecCCCCCc-------------ccccccc
Q psy10096 21 VSTYKEGIDRVLEGN-YAFLMESTMLDYIVQRNCN-LTQIGGLLDSKGYGIATPMGHSGL-------------VGHIACW 85 (125)
Q Consensus 21 v~~~~eGv~~vr~g~-~AfI~d~~~l~Y~~~~~C~-L~~vg~~f~~~gYgialp~gSpl~-------------~g~l~~l 85 (125)
+++..++++.+.+|+ +++|.|...+.+++.+.-+ +.+....+....++|++++++|-. .|.++.+
T Consensus 176 ~~~~~~~l~~L~~GrvD~~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~l~~~ln~~l~~~~~~g~~~~i 255 (266)
T PRK11260 176 YDDDPTKYQDLRVGRIDAILVDRLAALDLVKKTNDTLAVAGEAFSRQESGVALRKGNPDLLKAVNQAIAEMQKDGTLKAL 255 (266)
T ss_pred cCCHHHHHHHHHcCCCCEEEechHHHHHHHHhCCCcceecCCccccCceEEEEeCCCHHHHHHHHHHHHHHHhCCcHHHH
Confidence 567889999999999 9999999998888865433 555677788899999999988632 4677777
Q ss_pred cccccccc
Q psy10096 86 RWDDYFWS 93 (125)
Q Consensus 86 ~~~~kw~~ 93 (125)
. ++|..
T Consensus 256 ~--~k~~~ 261 (266)
T PRK11260 256 S--EKWFG 261 (266)
T ss_pred H--HHhcC
Confidence 7 77764
No 9
>TIGR01096 3A0103s03R lysine-arginine-ornithine-binding periplasmic protein.
Probab=96.95 E-value=0.0015 Score=49.06 Aligned_cols=59 Identities=19% Similarity=0.303 Sum_probs=46.2
Q ss_pred cccCHHHHHHHHhcCC-cEEEeehhhhHHHHhcC---CceeEeccccCc-----cceEEEecCCCCCc
Q psy10096 20 FVSTYKEGIDRVLEGN-YAFLMESTMLDYIVQRN---CNLTQIGGLLDS-----KGYGIATPMGHSGL 78 (125)
Q Consensus 20 ~v~~~~eGv~~vr~g~-~AfI~d~~~l~Y~~~~~---C~L~~vg~~f~~-----~gYgialp~gSpl~ 78 (125)
.+.+.++++++|.+|+ ++++.+.+.+.+++.+. .++..++..+.. ..++|+++++++-.
T Consensus 158 ~~~s~~~~~~~L~~g~vD~~v~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l 225 (250)
T TIGR01096 158 EYDSYDNANMDLKAGRIDAVFTDASVLAEGFLKPPNGKDFKFVGPSVTDEKYFGDGYGIGLRKGDTEL 225 (250)
T ss_pred EcCCHHHHHHHHHcCCCCEEEeCHHHHHHHHHhCCCCCceEEeccccccccccCCceEEEEeCCCHHH
Confidence 3578999999999999 99999999999988654 347777655543 24899999987533
No 10
>PRK11917 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed
Probab=96.91 E-value=0.00099 Score=51.65 Aligned_cols=56 Identities=16% Similarity=0.175 Sum_probs=46.7
Q ss_pred cccCHHHHHHHHhcCC-cEEEeehhhhHHHHhcCCceeEeccccCccceEEEecCCCCC
Q psy10096 20 FVSTYKEGIDRVLEGN-YAFLMESTMLDYIVQRNCNLTQIGGLLDSKGYGIATPMGHSG 77 (125)
Q Consensus 20 ~v~~~~eGv~~vr~g~-~AfI~d~~~l~Y~~~~~C~L~~vg~~f~~~gYgialp~gSpl 77 (125)
.+++..++++.+..|+ +|++.|.+++.++..+ ...+++..|....||+|++++++-
T Consensus 178 ~~~~~~~~~~~l~~GrvDa~~~d~~~~~~~~~~--~~~~~~~~~~~~~~~~a~~k~~~~ 234 (259)
T PRK11917 178 EFPDYPSIKAALDAKRVDAFSVDKSILLGYVDD--KSEILPDSFEPQSYGIVTKKDDPA 234 (259)
T ss_pred ecCCHHHHHHHHHcCCCcEEEecHHHHHHhhhc--CCeecCCcCCCCceEEEEeCCCHH
Confidence 3578899999999999 9999999988776654 346778888999999999999873
No 11
>PF00497 SBP_bac_3: Bacterial extracellular solute-binding proteins, family 3; InterPro: IPR001638 Bacterial high affinity transport systems are involved in active transport of solutes across the cytoplasmic membrane. The protein components of these traffic systems include one or two transmembrane protein components, one or two membrane-associated ATP-binding proteins (ABC transporters; see IPR003439 from INTERPRO) and a high affinity periplasmic solute-binding protein. The latter are thought to bind the substrate in the vicinity of the inner membrane, and to transfer it to a complex of inner membrane proteins for concentration into the cytoplasm. In Gram-positive bacteria which are surrounded by a single membrane and have therefore no periplasmic region, the equivalent proteins are bound to the membrane via an N-terminal lipid anchor. These homologue proteins do not play an integral role in the transport process per se, but probably serve as receptors to trigger or initiate translocation of the solute throught the membrane by binding to external sites of the integral membrane proteins of the efflux system. In addition, at least some solute-binding proteins function in the initiation of sensory transduction pathways. On the basis of sequence similarities, the vast majority of these solute-binding proteins can be grouped [] into eight families or clusters, which generally correlate with the nature of the solute bound. Family 3 groups together specific amino acids and opine-binding periplasmic proteins and a periplasmic homologue with catalytic activity.; GO: 0005215 transporter activity, 0006810 transport, 0030288 outer membrane-bounded periplasmic space; PDB: 3N26_A 3QAX_A 3I6V_A 2VHA_B 2IA4_B 2Q89_A 2Q88_A 2YJP_C 1II5_A 1IIW_A ....
Probab=96.86 E-value=0.00099 Score=48.26 Aligned_cols=72 Identities=21% Similarity=0.305 Sum_probs=53.3
Q ss_pred ccccCHHHHHHHHhcCC-cEEEeehhhhHHHHhcC--CceeEeccccCccceEEEecCCC-CCc------------cccc
Q psy10096 19 VFVSTYKEGIDRVLEGN-YAFLMESTMLDYIVQRN--CNLTQIGGLLDSKGYGIATPMGH-SGL------------VGHI 82 (125)
Q Consensus 19 ~~v~~~~eGv~~vr~g~-~AfI~d~~~l~Y~~~~~--C~L~~vg~~f~~~gYgialp~gS-pl~------------~g~l 82 (125)
+.+.+..+++++|++|+ +|+|.+...+.|++++. .....+........+++++.++. .|. +|.+
T Consensus 136 ~~~~~~~~~~~~l~~g~~d~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~n~~i~~l~~~G~~ 215 (225)
T PF00497_consen 136 VEVDSPEEALEALLSGRIDAFIVDESTAEYLLKRHPLENIVVIPPPISPSPVYFAVRKKNPELLEIFNKAIRELKQSGEI 215 (225)
T ss_dssp EEESSHHHHHHHHHTTSSSEEEEEHHHHHHHHHHTTTCEEEEEEEEEEEEEEEEEEETTTHHHHHHHHHHHHHHHHTTHH
T ss_pred cccccHHHHHHHHhcCCeeeeeccchhhhhhhhhcccccccccccccccceeEEeecccccHHHHHHHHHHHHHHhCcHH
Confidence 34789999999999999 89999999999999764 33333366677777788877654 444 4666
Q ss_pred cccccccccc
Q psy10096 83 ACWRWDDYFW 92 (125)
Q Consensus 83 ~~l~~~~kw~ 92 (125)
+.+. +||.
T Consensus 216 ~~i~--~ky~ 223 (225)
T PF00497_consen 216 QKIL--KKYL 223 (225)
T ss_dssp HHHH--HHHH
T ss_pred HHHH--HHHc
Confidence 6666 6664
No 12
>PRK15007 putative ABC transporter arginine-biding protein; Provisional
Probab=95.88 E-value=0.014 Score=43.79 Aligned_cols=56 Identities=20% Similarity=0.364 Sum_probs=42.8
Q ss_pred ccCHHHHHHHHhcCC-cEEEeehhhhHHHHhcCCceeEeccccC-----ccceEEEecCCCC
Q psy10096 21 VSTYKEGIDRVLEGN-YAFLMESTMLDYIVQRNCNLTQIGGLLD-----SKGYGIATPMGHS 76 (125)
Q Consensus 21 v~~~~eGv~~vr~g~-~AfI~d~~~l~Y~~~~~C~L~~vg~~f~-----~~gYgialp~gSp 76 (125)
+++.+++++.|..|+ +|++.+..++.|+..+.-.+..++..+. ..+.+|++++++|
T Consensus 153 ~~~~~~~~~~L~~grvDa~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 214 (243)
T PRK15007 153 YDSYQNAKLDLQNGRIDAVFGDTAVVTEWLKDNPKLAAVGDKVTDKDYFGTGLGIAVRQGNT 214 (243)
T ss_pred cCCHHHHHHHHHcCCCCEEEeCHHHHHHHHhcCCCceeecCcccccccCCcceEEEEeCCCH
Confidence 468899999999999 8999999999888866555666554332 3357899998764
No 13
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=95.73 E-value=0.011 Score=54.44 Aligned_cols=74 Identities=15% Similarity=0.192 Sum_probs=56.6
Q ss_pred ccccCHHHHHHHHhcCC-cEEEeehhhhHHHHhcC--Cce-eEeccccCccceEEEecCCCCCc------------cccc
Q psy10096 19 VFVSTYKEGIDRVLEGN-YAFLMESTMLDYIVQRN--CNL-TQIGGLLDSKGYGIATPMGHSGL------------VGHI 82 (125)
Q Consensus 19 ~~v~~~~eGv~~vr~g~-~AfI~d~~~l~Y~~~~~--C~L-~~vg~~f~~~gYgialp~gSpl~------------~g~l 82 (125)
..+++..++++.|.+|+ +|+|.+.+.+.|++++. -.+ ...+..+....+|||++++.|-. ...+
T Consensus 432 ~~~~~~~~~l~av~~G~~Da~i~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~av~k~~~~L~~~lnk~l~~i~~~~~ 511 (1197)
T PRK09959 432 IKVDNASAAFHKVKEGELDALVATQLNSRYMIDHYYPNELYHFLIPGVPNASLSFAFPRGEPELKDIINKALNAIPPSEV 511 (1197)
T ss_pred EEcCCHHHHHHHHHcCCCCEEehhhHHHHHHHHhcccccceeeecCCCCchheEEeeCCCCHHHHHHHHHHHHhCCHHHH
Confidence 34789999999999999 99999999999999652 223 33444566778999999998743 2456
Q ss_pred cccccccccccc
Q psy10096 83 ACWRWDDYFWSY 94 (125)
Q Consensus 83 ~~l~~~~kw~~~ 94 (125)
..+. ++|...
T Consensus 512 ~~i~--~kW~~~ 521 (1197)
T PRK09959 512 LRLT--EKWIKM 521 (1197)
T ss_pred HHHH--hhcccC
Confidence 6677 888764
No 14
>COG0834 HisJ ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]
Probab=95.28 E-value=0.019 Score=43.35 Aligned_cols=73 Identities=21% Similarity=0.148 Sum_probs=51.5
Q ss_pred ccccCHHHHHHHHhcCC-cEEEeehhhhHHH--HhcC-CceeEeccccCc-cceEEEecCC--CCCc------------c
Q psy10096 19 VFVSTYKEGIDRVLEGN-YAFLMESTMLDYI--VQRN-CNLTQIGGLLDS-KGYGIATPMG--HSGL------------V 79 (125)
Q Consensus 19 ~~v~~~~eGv~~vr~g~-~AfI~d~~~l~Y~--~~~~-C~L~~vg~~f~~-~gYgialp~g--Spl~------------~ 79 (125)
..+++..++++.+++|+ +|++.|.+++.+. .... -........+.. ..||++++++ ..++ +
T Consensus 173 ~~~~~~~~~~~al~~Gr~Da~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~in~~l~~l~~~ 252 (275)
T COG0834 173 VAYDSNAEALLALKNGRADAVVSDSAVLAGLKLLKKNPGLYVLLVFPGLSVEYLGIALRKGDDPELLEAVNKALKELKAD 252 (275)
T ss_pred EeeCCHHHHHHHHHcCCccEEEcchHhhhhhhhhhcCCCCceeeeccCCCcceeEEEeccCCcHHHHHHHHHHHHHHHhC
Confidence 34677789999999999 9999999999993 4332 222333333333 7899999999 3455 4
Q ss_pred cccccccccccccc
Q psy10096 80 GHIACWRWDDYFWS 93 (125)
Q Consensus 80 g~l~~l~~~~kw~~ 93 (125)
|.+..+- ++|..
T Consensus 253 G~~~~i~--~kw~~ 264 (275)
T COG0834 253 GTLQKIS--DKWFG 264 (275)
T ss_pred ccHHHHH--HHhcC
Confidence 6666666 77764
No 15
>cd00134 PBPb Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic ions. PBPs have two cell-membrane translocation functions: bind substrate, and interact with the membrane bound complex. A diverse group of periplasmic transport receptors for lysine/arginine/ornithine (LAO), glutamine, histidine, sulfate, phosphate, molybdate, and methanol are included in the PBPb CD.
Probab=95.26 E-value=0.055 Score=37.99 Aligned_cols=59 Identities=19% Similarity=0.343 Sum_probs=44.9
Q ss_pred CccccCHHHHHHHHhcCC-cEEEeehhhhHHHHhcC-CceeEeccc--cCccceEEEecCCCC
Q psy10096 18 SVFVSTYKEGIDRVLEGN-YAFLMESTMLDYIVQRN-CNLTQIGGL--LDSKGYGIATPMGHS 76 (125)
Q Consensus 18 ~~~v~~~~eGv~~vr~g~-~AfI~d~~~l~Y~~~~~-C~L~~vg~~--f~~~gYgialp~gSp 76 (125)
-..+.+.++.++.|..|+ +|++.+.+...+...+. +++.++... ..+..++|+..++++
T Consensus 129 ~~~~~~~~~~~~~l~~g~~d~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~ 191 (218)
T cd00134 129 VVSYDDNAEALAALENGRADAVIVDEIALAALLKKHPPELKIVGPSIDLEPLGFGVAVGKDNK 191 (218)
T ss_pred EEEeCCHHHHHHHHHcCCccEEEeccHHHHHHHHhcCCCcEEeccccCCCccceEEEEcCCCH
Confidence 345778899999999999 89999999999887664 888888764 444455676666663
No 16
>smart00062 PBPb Bacterial periplasmic substrate-binding proteins. bacterial proteins, eukaryotic ones are in PBPe
Probab=95.19 E-value=0.062 Score=37.52 Aligned_cols=57 Identities=23% Similarity=0.378 Sum_probs=46.4
Q ss_pred cccCHHHHHHHHhcCC-cEEEeehhhhHHHHhcC--CceeEeccccCc-cceEEEecCCCC
Q psy10096 20 FVSTYKEGIDRVLEGN-YAFLMESTMLDYIVQRN--CNLTQIGGLLDS-KGYGIATPMGHS 76 (125)
Q Consensus 20 ~v~~~~eGv~~vr~g~-~AfI~d~~~l~Y~~~~~--C~L~~vg~~f~~-~gYgialp~gSp 76 (125)
.+.+..+.+..+..|+ +|++...+.+.+...+. ..+.++...... ..++++++++++
T Consensus 132 ~~~~~~~~~~~l~~g~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 192 (219)
T smart00062 132 SYDSQAEALAALKAGRADAAVADAPALAALVKQHGLPELKIVGDPLDTPEGYAFAVRKGDP 192 (219)
T ss_pred EcCCHHHHHHHhhcCcccEEEeccHHHHHHHHhcCCCceeeccCCCCCCcceEEEEECCCH
Confidence 4567889999999999 88888888888877553 778887766655 888999999986
No 17
>PRK10859 membrane-bound lytic transglycosylase F; Provisional
Probab=95.05 E-value=0.033 Score=47.22 Aligned_cols=72 Identities=17% Similarity=0.143 Sum_probs=55.0
Q ss_pred ccCHHHHHHHHhcCC-cEEEeehhhhHHHHhcCCceeEeccccCccceEEEecCC-CC-Cc------------ccccccc
Q psy10096 21 VSTYKEGIDRVLEGN-YAFLMESTMLDYIVQRNCNLTQIGGLLDSKGYGIATPMG-HS-GL------------VGHIACW 85 (125)
Q Consensus 21 v~~~~eGv~~vr~g~-~AfI~d~~~l~Y~~~~~C~L~~vg~~f~~~gYgialp~g-Sp-l~------------~g~l~~l 85 (125)
..+.+++++.|.+|+ +|+|.|...+.+.....-++.+.........++||++++ +| |. +|.++.|
T Consensus 181 ~~s~~e~l~aL~~G~iDa~v~d~~~~~~~~~~~p~l~v~~~l~~~~~~~~av~k~~~~~L~~~ln~~L~~i~~~G~l~~L 260 (482)
T PRK10859 181 DKDSEELLEQVAEGKIDYTIADSVEISLNQRYHPELAVAFDLTDEQPVAWALPPSGDDSLYAALLDFFNQIKEDGTLARL 260 (482)
T ss_pred CCCHHHHHHHHHCCCCCEEEECcHHHHHHHHhCCCceeeeecCCCceeEEEEeCCCCHHHHHHHHHHHHHhhcCCHHHHH
Confidence 358899999999999 999999998876554445566655555667899999994 44 44 4888888
Q ss_pred ccccccccc
Q psy10096 86 RWDDYFWSY 94 (125)
Q Consensus 86 ~~~~kw~~~ 94 (125)
. ++|+..
T Consensus 261 ~--~kyfg~ 267 (482)
T PRK10859 261 E--EKYFGH 267 (482)
T ss_pred H--HHHhhh
Confidence 8 888754
No 18
>TIGR03871 ABC_peri_MoxJ_2 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein. This protein family, a sister family to TIGR03870, is found more broadly. It occurs a range of PQQ-biosynthesizing species, not just in known methanotrophs. Interpretation of evidence by homology and by direct experimental work suggest two different roles. By homology, this family appears to be the periplasmic substrate-binding protein of an ABC transport family. However, mutational studies and direct characterization for some sequences related to this family suggests this family may act as a maturation chaperone or additional subunit of a methanol dehydrogenase-like enzyme.
Probab=94.32 E-value=0.066 Score=39.81 Aligned_cols=54 Identities=9% Similarity=0.081 Sum_probs=39.5
Q ss_pred CHHHHHHHHhcCC-cEEEeehhhhHHHHhcC-CceeEecccc------CccceEEEecCCCC
Q psy10096 23 TYKEGIDRVLEGN-YAFLMESTMLDYIVQRN-CNLTQIGGLL------DSKGYGIATPMGHS 76 (125)
Q Consensus 23 ~~~eGv~~vr~g~-~AfI~d~~~l~Y~~~~~-C~L~~vg~~f------~~~gYgialp~gSp 76 (125)
+..++++.|.+|+ +|+|.+...+.|++.+. -.+.+++... ....++|+++++++
T Consensus 142 ~~~~~~~~l~~G~~Da~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 203 (232)
T TIGR03871 142 PPGRMVEDLAAGEIDVAIVWGPIAGYFAKQAGPPLVVVPLLPEDGGIPFDYRIAMGVRKGDK 203 (232)
T ss_pred CHHHHHHHHHcCCcCEEEeccHHHHHHHHhCCCCceeeccccCCCCCCccceEEEEEecCCH
Confidence 6789999999999 89999999999888643 2344444322 22356888998765
No 19
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=94.14 E-value=0.056 Score=49.83 Aligned_cols=73 Identities=10% Similarity=0.003 Sum_probs=54.6
Q ss_pred ccccCHHHHHHHHhcCC-cEEEeehhhhHHHHhcC--CceeEeccc-cCccceEEEecCCCCCc-------------ccc
Q psy10096 19 VFVSTYKEGIDRVLEGN-YAFLMESTMLDYIVQRN--CNLTQIGGL-LDSKGYGIATPMGHSGL-------------VGH 81 (125)
Q Consensus 19 ~~v~~~~eGv~~vr~g~-~AfI~d~~~l~Y~~~~~--C~L~~vg~~-f~~~gYgialp~gSpl~-------------~g~ 81 (125)
+.+++..+++++|.+|+ +|+|.+.+++.|++++. -++.+++.. .....++|+++++.|.. .+.
T Consensus 189 ~~~~s~~~al~av~~G~~Da~i~~~~~~~~~i~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~lnkal~~i~~~~~ 268 (1197)
T PRK09959 189 ISFTNLYQALASVSAGQNDYFIGSNIITSSMISRYFTHSLNVVKYYNSPRQYNFFLTRKESVILNEVLNRFVDALTNEVR 268 (1197)
T ss_pred EeCCCHHHHHHHHHcCCCCEEEccHHHHHHHHhcccccceEEEeeccCCCCceeEEEcCCcHHHHHHHHHHHHhCCHHHH
Confidence 46899999999999999 99999999999999763 456665532 23344678999998855 122
Q ss_pred ccccccccccccc
Q psy10096 82 IACWRWDDYFWSY 94 (125)
Q Consensus 82 l~~l~~~~kw~~~ 94 (125)
. .+. ++|+..
T Consensus 269 ~-~i~--~kW~~~ 278 (1197)
T PRK09959 269 Y-EVS--QNWLDT 278 (1197)
T ss_pred H-HHH--HhccCC
Confidence 3 567 888864
No 20
>TIGR02995 ectoine_ehuB ectoine/hydroxyectoine ABC transporter solute-binding protein. Members of this family are the extracellular solute-binding proteins of ABC transporters that closely resemble amino acid transporters. The member from Sinorhizobium meliloti is involved in ectoine uptake, both for osmoprotection and for catabolism. All other members of the seed alignment are found associated with ectoine catabolic genes.
Probab=94.13 E-value=0.074 Score=41.19 Aligned_cols=70 Identities=16% Similarity=0.130 Sum_probs=48.1
Q ss_pred cccCHHHHHHHHhcCC-cEEEeehhhhHHHHhcC--CceeEecc---ccCccceEEEecCCCCCc-------------cc
Q psy10096 20 FVSTYKEGIDRVLEGN-YAFLMESTMLDYIVQRN--CNLTQIGG---LLDSKGYGIATPMGHSGL-------------VG 80 (125)
Q Consensus 20 ~v~~~~eGv~~vr~g~-~AfI~d~~~l~Y~~~~~--C~L~~vg~---~f~~~gYgialp~gSpl~-------------~g 80 (125)
.+++.+++++.|.+|+ +|+|.+.+++.|++++. -.+..+.. ......++|+++++++-. +|
T Consensus 171 ~~~~~~~~i~~L~~grvDa~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~n~~l~~~~~sG 250 (275)
T TIGR02995 171 VVPDGQSGLKMVQDGRADAYSLTVLTINDLASKAGDPNVEVLAPFKDAPVRYYGGAAFRPEDKELRDAFNVELAKLKESG 250 (275)
T ss_pred EeCCHHHHHHHHHcCCCCEEecChHHHHHHHHhCCCCCceeecCccCCccccceeEEECCCCHHHHHHHHHHHHHHHhCh
Confidence 4688999999999999 99999999999988642 23443322 111123389888876533 46
Q ss_pred ccccccccccc
Q psy10096 81 HIACWRWDDYF 91 (125)
Q Consensus 81 ~l~~l~~~~kw 91 (125)
.+..+- ++|
T Consensus 251 ~~~~i~--~ky 259 (275)
T TIGR02995 251 EFAKII--APY 259 (275)
T ss_pred HHHHHH--HHh
Confidence 666666 566
No 21
>PRK15010 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional
Probab=94.11 E-value=0.1 Score=39.97 Aligned_cols=71 Identities=10% Similarity=0.072 Sum_probs=48.9
Q ss_pred ccCHHHHHHHHhcCC-cEEEeehhhhHH-HHhcC--CceeEeccc-----cCccceEEEecCCCC-Cc------------
Q psy10096 21 VSTYKEGIDRVLEGN-YAFLMESTMLDY-IVQRN--CNLTQIGGL-----LDSKGYGIATPMGHS-GL------------ 78 (125)
Q Consensus 21 v~~~~eGv~~vr~g~-~AfI~d~~~l~Y-~~~~~--C~L~~vg~~-----f~~~gYgialp~gSp-l~------------ 78 (125)
+++..+++++|..|+ +|+|.|..++.+ +..+. -.+..++.. +...+++||++++.+ |.
T Consensus 162 ~~~~~~~~~~l~~griDa~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~L~~~ln~~l~~l~~ 241 (260)
T PRK15010 162 YANQDLVYSDLAAGRLDAALQDEVAASEGFLKQPAGKDFAFAGPSVKDKKYFGDGTGVGLRKDDAELTAAFNKALGELRQ 241 (260)
T ss_pred cCCHHHHHHHHHcCCccEEEeCcHHHHHHHHhCCCCCceEEecCccccccccCCceEEEEeCCCHHHHHHHHHHHHHHHh
Confidence 567889999999999 999999888865 33332 234444432 223446899998875 33
Q ss_pred ccccccccccccccc
Q psy10096 79 VGHIACWRWDDYFWS 93 (125)
Q Consensus 79 ~g~l~~l~~~~kw~~ 93 (125)
+|.++.+. ++|..
T Consensus 242 ~G~~~~i~--~ky~~ 254 (260)
T PRK15010 242 DGTYDKMA--KKYFD 254 (260)
T ss_pred CCcHHHHH--HHhcC
Confidence 47777777 77765
No 22
>TIGR03870 ABC_MoxJ methanol oxidation system protein MoxJ. This predicted periplasmic protein, called MoxJ or MxaJ, is required for methanol oxidation in Methylobacterium extorquens. Two differing lines of evidence suggest two different roles. Forming one view, homology suggests it is the substrate-binding protein of an ABC transporter associated with methanol oxidation. The gene, furthermore, is found regular in genomes with, and only two or three genes away from, a corresponding permease and ATP-binding cassette gene pair. The other view is that this protein is an accessory factor or additional subunit of methanol dehydrogenase itself. Mutational studies show a dependence on this protein for expression of the PQQ-dependent, two-subunit methanol dehydrogenase (MxaF and MxaI) in Methylobacterium extorquens, as if it is a chaperone for enzyme assembly or a third subunit. A homologous N-terminal sequence was found in Paracoccus denitrificans as a 32Kd third subunit. This protein may, in
Probab=93.35 E-value=0.23 Score=37.92 Aligned_cols=54 Identities=9% Similarity=-0.001 Sum_probs=37.6
Q ss_pred HHHHHHHHhcCC-cEEEeehhhhHHHHhc-C--CceeEecccc-------Ccc--ceEEEecCCCCC
Q psy10096 24 YKEGIDRVLEGN-YAFLMESTMLDYIVQR-N--CNLTQIGGLL-------DSK--GYGIATPMGHSG 77 (125)
Q Consensus 24 ~~eGv~~vr~g~-~AfI~d~~~l~Y~~~~-~--C~L~~vg~~f-------~~~--gYgialp~gSpl 77 (125)
..++++.|++|+ +|+|.+.+.+.+++.+ . ..+..++..+ .+. .+|||++++++-
T Consensus 152 ~~~~~~aL~~GrvDa~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iav~k~~~~ 218 (246)
T TIGR03870 152 PRKLVSEVATGKADLAVAFAPEVARYVKASPEPLRMTVIPDDATRSDGAKIPMQYDQSMGVRKDDTA 218 (246)
T ss_pred HHHHHHHHHcCCCCEEEeeHHhHHHHHHhCCCCceEEeccccccccCCCCcceeeEEEEEEccCCHH
Confidence 578999999999 9999998888777754 2 2223344322 112 369999999873
No 23
>TIGR01098 3A0109s03R phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein. A subset of this model in which nearly all members exhibit genomic context with elements of phosphonate metabolism, particularly the C-P lyase system has been built (TIGR03431) as an equivalog. Nevertheless, there are members of this subfamily (TIGR01098) which show up sporadically on a phylogenetic tree that also show phosphonate context and are most likely competent to transport phosphonates.
Probab=92.67 E-value=0.28 Score=36.99 Aligned_cols=54 Identities=15% Similarity=-0.012 Sum_probs=44.3
Q ss_pred ccCHHHHHHHHhcCC-cEEEeehhhhHHHHhcC----CceeEeccccCccceEEEecCC
Q psy10096 21 VSTYKEGIDRVLEGN-YAFLMESTMLDYIVQRN----CNLTQIGGLLDSKGYGIATPMG 74 (125)
Q Consensus 21 v~~~~eGv~~vr~g~-~AfI~d~~~l~Y~~~~~----C~L~~vg~~f~~~gYgialp~g 74 (125)
+.+..+.++.+++|+ +|++.+.+.+.++..+. -++.+++..+....|||+++++
T Consensus 180 ~~~~~~~~~al~~G~~Da~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 238 (254)
T TIGR01098 180 SGSHDASALAVANGKVDAATNNSSAIGRLKKRGPSDMKKVRVIWKSPLIPNDPIAVRKD 238 (254)
T ss_pred cCchHHHHHHHHcCCCCeEEecHHHHHHHHHhCccchhheEEEEecCCCCCCCEEEECC
Confidence 345678999999999 89999999887766442 4688999888888899999998
No 24
>TIGR02285 conserved hypothetical protein. Members of this family are found in several Proteobacteria, including Pseudomonas putida KT2440, Bdellovibrio bacteriovorus HD100 (three members), Aeromonas hydrophila, and Chromobacterium violaceum ATCC 12472. The function is unknown.
Probab=92.66 E-value=0.14 Score=39.42 Aligned_cols=70 Identities=11% Similarity=-0.040 Sum_probs=48.7
Q ss_pred ccCHHHHHHHHhcCC-cEEEeehhhhHHHHhc-C---CceeEecccc--CccceEEEecCCC---CCc------------
Q psy10096 21 VSTYKEGIDRVLEGN-YAFLMESTMLDYIVQR-N---CNLTQIGGLL--DSKGYGIATPMGH---SGL------------ 78 (125)
Q Consensus 21 v~~~~eGv~~vr~g~-~AfI~d~~~l~Y~~~~-~---C~L~~vg~~f--~~~gYgialp~gS---pl~------------ 78 (125)
..+..+.+++|..|+ +|++.|..++.|++.+ + ..+..+.... ....++|++++++ .|.
T Consensus 169 ~~~~~~~~~~L~~GrvD~~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~l~~~in~~L~~l~~ 248 (268)
T TIGR02285 169 NAAMGNLFKMLEKGRVNYTLAYPPEKTYYEELNNGALPPLKFLPVAGMPAHISVWVACPKTEWGRKVIADIDQALSELNV 248 (268)
T ss_pred cchHHHHHHHHHcCCccEEEeCcHHHHHHHHhccCCcCCeeEeecCCCccceEEEEEeCCCHHHHHHHHHHHHHHHHHhh
Confidence 456777999999999 9999999999998863 2 3454443222 2345899999974 233
Q ss_pred cccccccccccccc
Q psy10096 79 VGHIACWRWDDYFW 92 (125)
Q Consensus 79 ~g~l~~l~~~~kw~ 92 (125)
.|.++.+. ++|.
T Consensus 249 dG~~~~i~--~k~~ 260 (268)
T TIGR02285 249 DPKYYKYF--DRWL 260 (268)
T ss_pred CHHHHHHH--HHhC
Confidence 46666676 6665
No 25
>PRK15437 histidine ABC transporter substrate-binding protein HisJ; Provisional
Probab=91.67 E-value=0.39 Score=36.66 Aligned_cols=73 Identities=10% Similarity=0.021 Sum_probs=48.5
Q ss_pred cccCHHHHHHHHhcCC-cEEEeehhhhHHH-HhcC--CceeEec-----cccCccceEEEecCCCC-Cc-----------
Q psy10096 20 FVSTYKEGIDRVLEGN-YAFLMESTMLDYI-VQRN--CNLTQIG-----GLLDSKGYGIATPMGHS-GL----------- 78 (125)
Q Consensus 20 ~v~~~~eGv~~vr~g~-~AfI~d~~~l~Y~-~~~~--C~L~~vg-----~~f~~~gYgialp~gSp-l~----------- 78 (125)
.+.+..+++++|..|+ ++++.+...+.+. ..+. -.+...+ ..+....++|+++++.+ |.
T Consensus 161 ~~~~~~~~i~~L~~grvD~~v~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~ia~~~~~~~l~~~~n~~l~~~~ 240 (259)
T PRK15437 161 SYQGQDNIYSDLTAGRIDAAFQDEVAASEGFLKQPVGKDYKFGGPSVKDEKLFGVGTGMGLRKEDNELREALNKAFAEMR 240 (259)
T ss_pred ecCCHHHHHHHHHcCCccEEEechHHHHHHHHhCCCCCceEEecCccccccccCcceEEEEeCCCHHHHHHHHHHHHHHH
Confidence 3567889999999999 8999999877642 3321 2333333 23334557899987654 33
Q ss_pred -cccccccccccccccc
Q psy10096 79 -VGHIACWRWDDYFWSY 94 (125)
Q Consensus 79 -~g~l~~l~~~~kw~~~ 94 (125)
+|.++.+. ++|...
T Consensus 241 ~~G~~~~i~--~k~~~~ 255 (259)
T PRK15437 241 ADGTYEKLA--KKYFDF 255 (259)
T ss_pred HCCcHHHHH--HHhcCC
Confidence 57788887 787653
No 26
>PF00405 Transferrin: Transferrin; InterPro: IPR001156 Transferrins are eukaryotic iron-binding glycoproteins that control the level of free iron in biological fluids []. The proteins have arisen by duplication of a domain, each duplicated domain binding one iron atom. Members of the family include blood serotransferrin (siderophilin); milk lactotransferrin (lactoferrin); egg white ovotransferrin (conalbumin); and membrane-associated melanotransferrin. Additional members of this family include inhibitor of carbonic anhydrase (ICA; mammals), major yolk protein (sea urchins), saxiphilin (frog), pacifastin (crayfish), and TTF-1 (algae). Most family members contain two transferrin-like domains of around 340 amino acids, the result of an ancient duplication event []. Each of the duplicated domains can be further divided into two subdomains that form a cleft inside of which the iron atom is bound in iron-transporting transferrin []. The iron-coordinating residues consist of an aspartic acid, two tyrosines and a histidine, as well as an arginine that coordinates a requisite anion. In addition to iron and anion liganding residues, the transferrin-like domain contains conserved cysteine residues involved in disulphide bond formation. Human lactoferrin is a serine peptidase belonging to MEROPS peptidase family S60, clan SR. It is found at high concentrations in all human secretions, where it plays a major role in mucosal defence. Lactoferrin cleaves IgA1 protease at an arginine-rich region defined by amino acids RRSRRSVR and digests Hap at a similar arginine-rich sequence (VRSRRAAR). Ser259 and Lys73 form a catalytic dyad, reminiscent of a number of bacterial serine proteases. ; GO: 0008199 ferric iron binding, 0006826 iron ion transport, 0006879 cellular iron ion homeostasis, 0005576 extracellular region; PDB: 1JNF_A 1TFD_A 1JW1_A 1DTZ_A 2J4U_X 1I6Q_A 1BIY_A 1CE2_A 1H76_A 1F9B_A ....
Probab=74.89 E-value=11 Score=30.75 Aligned_cols=57 Identities=18% Similarity=0.280 Sum_probs=39.9
Q ss_pred ccCHHHHHHHHhcCC-cEEEeehhhhHHHHh-cCCcee-EeccccC------ccceEEEec-CCCCCc
Q psy10096 21 VSTYKEGIDRVLEGN-YAFLMESTMLDYIVQ-RNCNLT-QIGGLLD------SKGYGIATP-MGHSGL 78 (125)
Q Consensus 21 v~~~~eGv~~vr~g~-~AfI~d~~~l~Y~~~-~~C~L~-~vg~~f~------~~gYgialp-~gSpl~ 78 (125)
..+..+-++++++|. ++++.|...+ |.+. +.++|. ++.+.+. ...|++|+- ++|..+
T Consensus 34 ~~s~~dCm~~I~~g~AD~v~ld~~~~-y~A~~~~~~L~pi~~E~y~~~~~~~~~y~aVAVVkk~s~~~ 100 (330)
T PF00405_consen 34 ATSREDCMRRIKKGEADAVTLDGGDV-YIAGLRKYNLKPIAAEVYGSEEEPEASYYAVAVVKKSSNIT 100 (330)
T ss_dssp ESSHHHHHHHHHTTSSSBEEEEHHHH-HHHHSTTTTEEEEEEEEESSSSSEESEEEEEEEEETTSS-S
T ss_pred CCCHHHHHHHHhhccCCEEEeCchhh-hhhhccccCCEEeeeeeccccccccceeEEEEEEecCCCcc
Confidence 467899999999999 9998888765 4555 789986 4455444 234677754 456544
No 27
>PRK00489 hisG ATP phosphoribosyltransferase; Reviewed
Probab=70.40 E-value=5.4 Score=31.54 Aligned_cols=70 Identities=10% Similarity=-0.055 Sum_probs=50.7
Q ss_pred ccCHHHHHHHHhcCC-cEEEeehhhhHHHHhcCCceeEeccccCccceEEEecC--CCCCc-----------cccccccc
Q psy10096 21 VSTYKEGIDRVLEGN-YAFLMESTMLDYIVQRNCNLTQIGGLLDSKGYGIATPM--GHSGL-----------VGHIACWR 86 (125)
Q Consensus 21 v~~~~eGv~~vr~g~-~AfI~d~~~l~Y~~~~~C~L~~vg~~f~~~gYgialp~--gSpl~-----------~g~l~~l~ 86 (125)
..+..|. .++.|. +|++.+.++..++... .|.++ +.+.+..++|+.++ ++|-. +|.+..+.
T Consensus 140 ~~gs~ea--a~~~G~aDaivd~~~~~~~l~~~--~L~~v-~~~~~~~~~li~~k~~~~~~~~~~i~~~l~~l~g~l~a~~ 214 (287)
T PRK00489 140 LSGAVEV--APRLGLADAIVDVVSTGTTLRAN--GLKIV-EVILRSEAVLIARKGWLDPEKQEKIDQLLTRLQGVLRARE 214 (287)
T ss_pred CCCchhh--hhcCCcccEEEeeHHHHHHHHHC--CCEEE-EeeeeeeEEEEEcccccChhHHHHHHHHHHHHHHHHHhhc
Confidence 3444454 455588 8998878887776654 68888 57777889999999 56644 58888888
Q ss_pred cccccccccCc
Q psy10096 87 WDDYFWSYNNV 97 (125)
Q Consensus 87 ~~~kw~~~~c~ 97 (125)
.||...++-
T Consensus 215 --~k~~~~~~~ 223 (287)
T PRK00489 215 --SKYLMMNAP 223 (287)
T ss_pred --eEEEEEeCC
Confidence 999876664
No 28
>PF09084 NMT1: NMT1/THI5 like; InterPro: IPR015168 This entry is found in the NMT1 and THI5 proteins. These proteins are proposed to be required for the biosynthesis of the pyrimidine moiety of thiamine [, , ]. They are regulated by thiamine []. ; PDB: 2X26_A 3E4R_A 3KSJ_A 3KSX_A 3UIF_A 4DDD_A 1US4_A 1US5_A 3IX1_B 2X7P_A ....
Probab=54.79 E-value=53 Score=23.75 Aligned_cols=57 Identities=9% Similarity=0.089 Sum_probs=41.1
Q ss_pred ccCHHHHHHHHhcCC-c-EEEeehhhhHHHHhcCCceeEeccccCccceEEEecCCCCCc
Q psy10096 21 VSTYKEGIDRVLEGN-Y-AFLMESTMLDYIVQRNCNLTQIGGLLDSKGYGIATPMGHSGL 78 (125)
Q Consensus 21 v~~~~eGv~~vr~g~-~-AfI~d~~~l~Y~~~~~C~L~~vg~~f~~~gYgialp~gSpl~ 78 (125)
..+..+.++.+..|+ + ++......+ ....+.=++..++..+.....+|.++++|+.+
T Consensus 28 ~~~~~~~~~~l~~G~~D~~~~~~~~~~-~~~~~g~~~~~i~~~~~~~~~~l~~~~~s~i~ 86 (216)
T PF09084_consen 28 FGGGGDVLEALASGKADIAVAGPDAVL-FARAKGADIKIIAASYQSSPNALVVRKDSGIK 86 (216)
T ss_dssp ESSHHHHHHHHHTTSHSEEEEECHHHH-HHHHTTSTEEEEEEEEEECCEEEEEETTTS-S
T ss_pred ecChhHHHHHHhcCCceEEeccchHHH-HHHhcCCeeEEEEEecCCCceEEEEeccCCCC
Confidence 356678899999998 5 555555555 33345578888887776677889999999977
No 29
>TIGR03431 PhnD phosphonate ABC transporter, periplasmic phosphonate binding protein. Note that this model does not identify all phnD-subfamily genes with evident phosphonate context, but all sequences above the trusted context may be inferred to bind phosphonate compounds even in the absence of such context. Furthermore, there is ample evidence to suggest that many other members of the TIGR01098 subfamily have a different primary function.
Probab=53.76 E-value=38 Score=26.05 Aligned_cols=53 Identities=17% Similarity=0.029 Sum_probs=36.3
Q ss_pred CHHHHHHHHhcCC-cEEEeehhhhHHHHhcC-----CceeEeccccCccceEEEecCCC
Q psy10096 23 TYKEGIDRVLEGN-YAFLMESTMLDYIVQRN-----CNLTQIGGLLDSKGYGIATPMGH 75 (125)
Q Consensus 23 ~~~eGv~~vr~g~-~AfI~d~~~l~Y~~~~~-----C~L~~vg~~f~~~gYgialp~gS 75 (125)
+..+.++.|.+|+ +|++.+.+.+..+..+. -++.++...-...+.+|+++++-
T Consensus 176 ~~~~~~~al~~G~vDa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 234 (288)
T TIGR03431 176 SHEAAILAVANGTVDAATTNDENLDRMIRKGQPDAMEDLRIIWKSPLIPNGPIVYRKDL 234 (288)
T ss_pred chHHHHHHHHcCCCCeEeccHHHHHHHHHcCCCCchhheEEEEEcCCCCCCcEEEeCCC
Confidence 5788999999999 89888888777766432 13555543222234678888884
No 30
>PRK01906 tetraacyldisaccharide 4'-kinase; Provisional
Probab=41.29 E-value=34 Score=28.17 Aligned_cols=54 Identities=15% Similarity=0.245 Sum_probs=42.9
Q ss_pred cCHHHHHHHHhc---CCcEEEeehhhhHHHHhcCCceeEeccccCccceEEEecCCCCCc
Q psy10096 22 STYKEGIDRVLE---GNYAFLMESTMLDYIVQRNCNLTQIGGLLDSKGYGIATPMGHSGL 78 (125)
Q Consensus 22 ~~~~eGv~~vr~---g~~AfI~d~~~l~Y~~~~~C~L~~vg~~f~~~gYgialp~gSpl~ 78 (125)
.+..+|.+++.+ |-+.+|.|-....|...++.++.++.. ...|.|+.+|.| ||+
T Consensus 134 ~dR~~aa~~l~~~~~~~dviIlDDGfQH~~L~RDleIvl~D~--~~~Gng~lLPaG-pLR 190 (338)
T PRK01906 134 PDRVAAAQALLAAHPGVDVIVSDDGLQHYRLARDVEIVVFDH--RLGGNGFLLPAG-PLR 190 (338)
T ss_pred CcHHHHHHHHHHhCCCCCEEEECCCCccchhcCCcEEEEEcC--CCCCCCcccCCc-CCc
Confidence 566677877753 348999999999998999999999976 445889999999 444
No 31
>TIGR03261 phnS2 putative 2-aminoethylphosphonate ABC transporter, periplasmic 2-aminoethylphosphonate-binding protein. This ABC transporter extracellular solute-binding protein is found in a number of genomes in operon-like contexts strongly suggesting a substrate specificity for 2-aminoethylphosphonate (2-AEP). The characterized PhnSTUV system is absent in the genomes in which this system is found. These genomes encode systems for the catabolism of 2-AEP, making the need for a 2-AEP-specific transporter likely.
Probab=39.57 E-value=99 Score=24.39 Aligned_cols=69 Identities=14% Similarity=0.151 Sum_probs=37.1
Q ss_pred HHHHHhcC--CCccccCHHHHHHHHhcCCc--EEEeehhhhHHHHhcCCceeEe--ccccCccceEEEecCCCCCc
Q psy10096 9 WRYMENKK--PSVFVSTYKEGIDRVLEGNY--AFLMESTMLDYIVQRNCNLTQI--GGLLDSKGYGIATPMGHSGL 78 (125)
Q Consensus 9 ~~~M~~~~--~~~~v~~~~eGv~~vr~g~~--AfI~d~~~l~Y~~~~~C~L~~v--g~~f~~~gYgialp~gSpl~ 78 (125)
|+++++-. -..+.++..+.++.+.+|+. ++.++...+.... +.-.+..+ .+.......++++++|+|-.
T Consensus 186 ~~~l~~l~~n~~~~~~s~~~~~~~v~~Ge~~i~~~~~~~~~~~~~-~g~~v~~~~P~eG~~~~~~~~ai~k~a~~~ 260 (334)
T TIGR03261 186 WDYMDKLHKNIAVYTHSGSKPCKLAGMGEFPIGISMAYRALKEKK-KGAPIDVVFPKEGLGWDIEATAIIKGSKNN 260 (334)
T ss_pred HHHHHHHHhccCccCCCChHHHHHHhCCCceEEEEecHHHHHHHh-CCCCeEEEecCCCCeeeeeeeEEEcCCCCH
Confidence 44444432 22345566778888999983 4556655443322 22223222 11111223589999999854
No 32
>PF12974 Phosphonate-bd: ABC transporter, phosphonate, periplasmic substrate-binding protein ; PDB: 3N5L_B 3QUJ_C 3P7I_A 3QK6_A 3S4U_A.
Probab=39.38 E-value=65 Score=24.07 Aligned_cols=63 Identities=13% Similarity=0.179 Sum_probs=33.2
Q ss_pred ccCHHHHHHHHhcCCcEEEeehhhhHHHH-hcCCceeEecccc---C--ccceEEEecCCCCCccccccccc
Q psy10096 21 VSTYKEGIDRVLEGNYAFLMESTMLDYIV-QRNCNLTQIGGLL---D--SKGYGIATPMGHSGLVGHIACWR 86 (125)
Q Consensus 21 v~~~~eGv~~vr~g~~AfI~d~~~l~Y~~-~~~C~L~~vg~~f---~--~~gYgialp~gSpl~~g~l~~l~ 86 (125)
..+..+-++.+++|++-|++-.|. .|.. .+...+..+.... + .....|.++++|+.+ .|+.|+
T Consensus 36 ~~~~~~~~~~l~~g~~D~~~~~~~-~~~~~~~~~~~~~la~~~~~~g~~~~~~~ivv~~ds~i~--~l~dL~ 104 (243)
T PF12974_consen 36 ADDYAEFIEALRSGEIDLAFMGPL-PYVQARQRAGVEPLATPVGPDGSPSYRSVIVVRADSPIT--SLADLK 104 (243)
T ss_dssp -SSHHHHHHHHHTTS-SEEE--HH-HHHHHHHHSSEEEEEEEEETTT-SCEEEEEEEETTSS----SHHHHG
T ss_pred cCCHHHHHHHHHcCCccEEEECcH-HHHHHhhcCcEEEEEEecccCCCcceeEEEEEECCCCCC--ChhhcC
Confidence 457889999999998444443443 3333 3223444443222 2 333459999999976 344444
No 33
>smart00094 TR_FER Transferrin.
Probab=36.52 E-value=1e+02 Score=25.25 Aligned_cols=57 Identities=19% Similarity=0.228 Sum_probs=35.0
Q ss_pred ccCHHHHHHHHhcCC-cEEEeehhhhHHHHhcCCceeEec-cccC------ccceEEE-ecCCCCCc
Q psy10096 21 VSTYKEGIDRVLEGN-YAFLMESTMLDYIVQRNCNLTQIG-GLLD------SKGYGIA-TPMGHSGL 78 (125)
Q Consensus 21 v~~~~eGv~~vr~g~-~AfI~d~~~l~Y~~~~~C~L~~vg-~~f~------~~gYgia-lp~gSpl~ 78 (125)
..+..+.|+++++|+ ++...|... -|.+.+.-+|..+- +... ...|++| ++++|+..
T Consensus 34 ~~s~~~Ci~~I~~g~AD~a~ldg~~-~y~A~~~~~l~pi~~E~~~~~~~~~~~Y~aVaVVkk~S~i~ 99 (332)
T smart00094 34 ASSTEECIKAIQKGEADAVTLDGGD-VYTAGKPYNLVPVFAENYGSEEEPETGYYAVAVVKKGSAIF 99 (332)
T ss_pred cCCHHHHHHHHHCCCCCEEEECcHH-HHhhcccCCceEEEEEeeccCCCCCceeEEEEEEECCCCCC
Confidence 467899999999999 777776664 23334333344332 2221 2456755 55788855
No 34
>TIGR01728 SsuA_fam ABC transporter, substrate-binding protein, aliphatic sulfonates family. Members of this family are substrate-binding periplasmic proteins of ABC transporters. This subfamily includes SsuA, a member of a transporter operon needed to obtain sulfur from aliphatic sulfonates. Related proteins outside the scope of this model include taurine (NH2-CH2-CH2-S03H) binding proteins, the probable sulfate ester binding protein AtsR, and the probable aromatic sulfonate binding protein AsfC. All these families make sulfur available when Cys and sulfate levels are low. Please note that phylogenetic analysis by neighbor-joining suggests that a number of sequences belonging to this family have been excluded because of scoring lower than taurine-binding proteins.
Probab=33.98 E-value=94 Score=23.15 Aligned_cols=55 Identities=13% Similarity=0.132 Sum_probs=35.9
Q ss_pred CHHHHHHHHhcCC-c-EEEeehhhhHHHHhcCCceeEeccccCccceEEEecCCCCCc
Q psy10096 23 TYKEGIDRVLEGN-Y-AFLMESTMLDYIVQRNCNLTQIGGLLDSKGYGIATPMGHSGL 78 (125)
Q Consensus 23 ~~~eGv~~vr~g~-~-AfI~d~~~l~Y~~~~~C~L~~vg~~f~~~gYgialp~gSpl~ 78 (125)
+..+.++.+.+|+ + |++.-.+.+.. ..+..++..++......+..|++++++|+.
T Consensus 38 ~~~~~~~~l~~G~~D~~~~~~~~~~~~-~~~g~~~~~i~~~~~~~~~~~v~~~~~~i~ 94 (288)
T TIGR01728 38 AGPPALEALGAGSLDFGYIGPGPALFA-YAAGADIKAVGLVSDNKATAIVVIKGSPIR 94 (288)
T ss_pred CCcHHHHHHhcCCccccccCCcHHHHH-HhcCCCEEEEEEecCCCceEEEECCCCCCC
Confidence 4567889999998 4 45544333332 233467777765444356788899999877
No 35
>PF02606 LpxK: Tetraacyldisaccharide-1-P 4'-kinase; InterPro: IPR003758 Tetraacyldisaccharide 4'-kinase phosphorylates the 4'-position of a tetraacyldisaccharide 1-phosphate precursor (DS-1-P) of lipid A, but the enzyme has not yet been purified because of instability []. This enzyme is involved in the synthesis of lipid A portion of the bacterial lipopolysaccharide layer (LPS).; GO: 0005524 ATP binding, 0009029 tetraacyldisaccharide 4'-kinase activity, 0009245 lipid A biosynthetic process
Probab=31.76 E-value=55 Score=26.71 Aligned_cols=55 Identities=11% Similarity=0.147 Sum_probs=43.8
Q ss_pred cCHHHHHHHHhc-C-CcEEEeehhhhHHHHhcCCceeEeccccCccceEEEecCCCCCc
Q psy10096 22 STYKEGIDRVLE-G-NYAFLMESTMLDYIVQRNCNLTQIGGLLDSKGYGIATPMGHSGL 78 (125)
Q Consensus 22 ~~~~eGv~~vr~-g-~~AfI~d~~~l~Y~~~~~C~L~~vg~~f~~~gYgialp~gSpl~ 78 (125)
.+..+|++.+.+ . -+.+|.|-....+.+.+++++.++.. -...|.|..+|.| ||+
T Consensus 114 ~dR~~~~~~~~~~~~~dviilDDGfQh~~L~rDl~Ivl~D~-~~~~gng~lLPaG-~LR 170 (326)
T PF02606_consen 114 PDRVAAARAALKEFPADVIILDDGFQHRRLKRDLDIVLVDA-DRPFGNGFLLPAG-PLR 170 (326)
T ss_pred CcHHHHHHHHHHHCCCCEEEEcCCcccccccCCcEEEEEeC-CCCCcCCccCCCC-ccc
Confidence 456778888776 3 38999999999998899999999985 3566778999998 444
No 36
>COG1663 LpxK Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]
Probab=31.74 E-value=67 Score=26.71 Aligned_cols=61 Identities=16% Similarity=0.309 Sum_probs=47.7
Q ss_pred CCCccccCHHHHHHHHhc--CC-cEEEeehhhhHHHHhcCCceeEeccccCccceEEEecCCCCCc
Q psy10096 16 KPSVFVSTYKEGIDRVLE--GN-YAFLMESTMLDYIVQRNCNLTQIGGLLDSKGYGIATPMGHSGL 78 (125)
Q Consensus 16 ~~~~~v~~~~eGv~~vr~--g~-~AfI~d~~~l~Y~~~~~C~L~~vg~~f~~~gYgialp~gSpl~ 78 (125)
-+.....+..+|++.+.+ .. +.+|.|--...|..++|=++.++... ...|-|+.+|.| ||+
T Consensus 120 ~pv~v~~~R~~~~~~l~~~~~~~diIi~DDG~Qh~rL~rD~eIvvvd~~-r~fGng~~lPaG-pLR 183 (336)
T COG1663 120 APVAVSPDRKDAAKALLAAHLGCDIIVLDDGLQHYRLHRDFEIVVVDGQ-RGFGNGFLLPAG-PLR 183 (336)
T ss_pred CcEEEehhHHHHHHHHHhhCCCCCEEEEcCcchhhHhhcceeEEEEecc-ccCCCcccccCC-ccc
Confidence 445556788899999987 44 88999999989988999999888753 345668889988 555
No 37
>PRK05773 3,4-dihydroxy-2-butanone 4-phosphate synthase; Validated
Probab=30.71 E-value=52 Score=25.63 Aligned_cols=21 Identities=10% Similarity=0.199 Sum_probs=18.1
Q ss_pred CHHHHHHHHhcCCcEEEeehh
Q psy10096 23 TYKEGIDRVLEGNYAFLMEST 43 (125)
Q Consensus 23 ~~~eGv~~vr~g~~AfI~d~~ 43 (125)
+++++|+.+|+|+..+|+|..
T Consensus 2 ~ie~ai~al~~G~~Viv~Dde 22 (219)
T PRK05773 2 DFEEARKALESGIPVLIYDFD 22 (219)
T ss_pred CHHHHHHHHHCCCeEEEEECC
Confidence 578999999999988888754
No 38
>PRK00910 ribB 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional
Probab=29.90 E-value=24 Score=27.57 Aligned_cols=54 Identities=7% Similarity=0.099 Sum_probs=33.3
Q ss_pred ccCHHHHHHHHhcCCcEEEeehhhhHHHHhcCCceeEeccccCccceEEEecCCCCCc
Q psy10096 21 VSTYKEGIDRVLEGNYAFLMESTMLDYIVQRNCNLTQIGGLLDSKGYGIATPMGHSGL 78 (125)
Q Consensus 21 v~~~~eGv~~vr~g~~AfI~d~~~l~Y~~~~~C~L~~vg~~f~~~gYgialp~gSpl~ 78 (125)
+++++++|+.+|+|+..+|.|..-- .+.-+|....+...+..-+|.+..++.+.
T Consensus 14 ~~~ie~ai~al~~G~~Viv~Dde~R----EnEgDlv~aAe~~T~e~v~fm~r~~~Gli 67 (218)
T PRK00910 14 ITRVENALQALREGRGVLLLDDEDR----ENEGDIIYSVEHLTNAQMALMIRECSGIV 67 (218)
T ss_pred cccHHHHHHHHHCCCeEEEEeCCCC----CccccEEEEhhhCCHHHHHHHHHhCCccE
Confidence 4679999999999998888876531 22245554444444444444444444443
No 39
>TIGR00506 ribB 3,4-dihydroxy-2-butanone 4-phosphate synthase. Several members of the family are bifunctional, involving both ribA and ribB function. In these cases, ribA tends to be on the C-terminal end of the protein and ribB tends to be on the N-terminal.
Probab=29.31 E-value=58 Score=24.98 Aligned_cols=23 Identities=9% Similarity=0.345 Sum_probs=18.9
Q ss_pred ccCHHHHHHHHhcCCcEEEeehh
Q psy10096 21 VSTYKEGIDRVLEGNYAFLMEST 43 (125)
Q Consensus 21 v~~~~eGv~~vr~g~~AfI~d~~ 43 (125)
+++++++|+.+|+|+..+|+|..
T Consensus 2 ~~~ie~ai~al~~G~~Viv~Dd~ 24 (199)
T TIGR00506 2 FERVEEALEALKKGEIVLVYDDE 24 (199)
T ss_pred cchHHHHHHHHHCCCeEEEEeCC
Confidence 35799999999999988777754
No 40
>PRK00652 lpxK tetraacyldisaccharide 4'-kinase; Reviewed
Probab=26.99 E-value=66 Score=26.33 Aligned_cols=55 Identities=16% Similarity=0.317 Sum_probs=41.0
Q ss_pred cCHHHHHHHHhc--CCcEEEeehhhhHHHHhcCCceeEeccccCccceEEEecCCCCCc
Q psy10096 22 STYKEGIDRVLE--GNYAFLMESTMLDYIVQRNCNLTQIGGLLDSKGYGIATPMGHSGL 78 (125)
Q Consensus 22 ~~~~eGv~~vr~--g~~AfI~d~~~l~Y~~~~~C~L~~vg~~f~~~gYgialp~gSpl~ 78 (125)
.+..+|.+.+.+ |-+.+|.|-....+...+++++.++... ...|.|..+|.| ||+
T Consensus 128 ~dR~~~~~~~~~~~~~dviilDDGfQh~~l~rdl~Ivl~d~~-~~fgng~~LPaG-~LR 184 (325)
T PRK00652 128 PDRVAAARALLAAHGADIIILDDGLQHYRLARDIEIVVVDGQ-RGFGNGFLLPAG-PLR 184 (325)
T ss_pred CcHHHHHHHHHhcCCCCEEEEcCCccCcccCCCeEEEEECCC-CCCCCCccCCCc-Ccc
Confidence 366677777764 4588999988888888999999988742 345668889988 444
No 41
>COG0687 PotD Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]
Probab=26.81 E-value=3.4e+02 Score=21.87 Aligned_cols=76 Identities=14% Similarity=0.120 Sum_probs=52.3
Q ss_pred hHHHHHHHHHHhcCC-CccccCHHHHHHHHhcCC--cEEEeehhhhHHHHhcCCc-eeEeccc--cCccceEEEecCCCC
Q psy10096 3 DTYKKMWRYMENKKP-SVFVSTYKEGIDRVLEGN--YAFLMESTMLDYIVQRNCN-LTQIGGL--LDSKGYGIATPMGHS 76 (125)
Q Consensus 3 ~~y~~m~~~M~~~~~-~~~v~~~~eGv~~vr~g~--~AfI~d~~~l~Y~~~~~C~-L~~vg~~--f~~~gYgialp~gSp 76 (125)
..+++.++.+.+.++ .++..+..+-++.+.+|+ .+..|...+..-....++. +..+-.. ..--...+++|+|+|
T Consensus 201 ~~~~~a~~~L~~~kp~~~~~~~~~~~~~~l~~Gev~~a~~w~g~~~~~~~~~~~~~i~~~~p~eG~~~w~D~~~ipk~a~ 280 (363)
T COG0687 201 EDLKKAFDLLDKLKPVNVYWFDGSQYVQLLANGEVVLAMGWSGDAAAAKAAKNGAPIEFVIPKEGSILWFDNLAIPKGAK 280 (363)
T ss_pred HHHHHHHHHHHHhCcccEEEecchHHHHHHhcCCEEEEEEeChHHHHHHHhhcCCceEEEcCCCCceeeeEeeeeeCCCC
Confidence 356778888888788 888889999999999998 3566666664432113343 5555432 444455799999999
Q ss_pred Cc
Q psy10096 77 GL 78 (125)
Q Consensus 77 l~ 78 (125)
-.
T Consensus 281 n~ 282 (363)
T COG0687 281 NV 282 (363)
T ss_pred CH
Confidence 44
No 42
>TIGR00682 lpxK tetraacyldisaccharide 4'-kinase. Also called lipid-A 4'-kinase. This essential gene encodes an enzyme in the pathway of lipid A biosynthesis in Gram-negative organisms. A single copy of this protein is found in Gram-negative bacteria. PSI-BLAST converges on this set of apparent orthologs without identifying any other homologs.
Probab=26.28 E-value=74 Score=25.84 Aligned_cols=55 Identities=18% Similarity=0.282 Sum_probs=41.6
Q ss_pred cCHHHHHHHHhc-C-CcEEEeehhhhHHHHhcCCceeEeccccCccceEEEecCCCCCc
Q psy10096 22 STYKEGIDRVLE-G-NYAFLMESTMLDYIVQRNCNLTQIGGLLDSKGYGIATPMGHSGL 78 (125)
Q Consensus 22 ~~~~eGv~~vr~-g-~~AfI~d~~~l~Y~~~~~C~L~~vg~~f~~~gYgialp~gSpl~ 78 (125)
.+..+|++.+.+ . -+.+|.|-....|...++.++.++... ...|.|..+|.| ||+
T Consensus 107 ~dR~~a~~~~~~~~~~dviilDDGfQh~~l~rD~~IvlvD~~-~~fgng~lLPaG-pLR 163 (311)
T TIGR00682 107 KDRKDAILLILEQLDPDVIILDDGLQHRKLHRDVEIVVVDGQ-RPFGNGFLLPAG-PLR 163 (311)
T ss_pred ChHHHHHHHHHhcCCCCEEEECCCCcCccccCCeEEEEECCC-CCCCCCcccCCc-CCC
Confidence 455677777753 3 489999999988888999999999742 345678899998 444
No 43
>PRK00014 ribB 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional
Probab=25.30 E-value=31 Score=27.19 Aligned_cols=53 Identities=11% Similarity=0.095 Sum_probs=33.6
Q ss_pred cCHHHHHHHHhcCCcEEEeehhhhHHHHhcCCceeEeccccCccceEEEecCCCCCc
Q psy10096 22 STYKEGIDRVLEGNYAFLMESTMLDYIVQRNCNLTQIGGLLDSKGYGIATPMGHSGL 78 (125)
Q Consensus 22 ~~~~eGv~~vr~g~~AfI~d~~~l~Y~~~~~C~L~~vg~~f~~~gYgialp~gSpl~ 78 (125)
.+++++|+.+++|+..+|+|..-- ....+|....+...+..-+|....++.+.
T Consensus 19 ~~i~~ai~al~~Gk~Viv~Dde~R----EnEgDlv~aAe~~T~e~v~fm~r~~~Gli 71 (230)
T PRK00014 19 TRLERALQHLRIGRPVILMDDFDR----ENEADLIVAADKLTVPVMAQLIRDGSGIV 71 (230)
T ss_pred hhHHHHHHHHHCCCeEEEEECCCC----CccccEEEEhhhCCHHHHHHHHHHCCccE
Confidence 569999999999998888886531 22355555555444444455555555444
No 44
>TIGR01256 modA molybdenum ABC transporter, periplasmic molybdate-binding protein. The model describes the molybdate ABC transporter periplasmic binding protein in bacteria and archae. Several of the periplasmic receptors constitute a diverse class of binding proteins that differ widely in size, sequence and ligand specificity. It has been shown experimentally by radioactive labeling that ModA represent hydrophylioc periplasmic-binding protein in gram-negative organisms and its counterpart in gram-positive organisms is a lipoprotein. The other components of the system include the ModB, an integral membrane protein and ModC the ATP-binding subunit. Invariably almost all of them display a common beta/alpha folding motif and have similar tertiary structures consisting of two globular domains.
Probab=24.76 E-value=1.5e+02 Score=21.56 Aligned_cols=57 Identities=12% Similarity=0.154 Sum_probs=34.6
Q ss_pred cccCHHHHHHHHhcCC-c-EEEeehhhhHHHHhcCCceeEecc-ccCccceEEEecCCCCCc
Q psy10096 20 FVSTYKEGIDRVLEGN-Y-AFLMESTMLDYIVQRNCNLTQIGG-LLDSKGYGIATPMGHSGL 78 (125)
Q Consensus 20 ~v~~~~eGv~~vr~g~-~-AfI~d~~~l~Y~~~~~C~L~~vg~-~f~~~gYgialp~gSpl~ 78 (125)
...+..+.++.+.+|+ + ++++.+..... ........+.. ......|+++++++++-.
T Consensus 134 ~~~~~~~~~~~~~~Ge~~~~~~~~~~~~~~--~~~~~~~~~P~~~~~~~~~~~ai~k~a~~~ 193 (216)
T TIGR01256 134 YGEDVRQALQFVETGNAPAGIVALSDVIPS--KKVGSVATFPEDLYKPIRYPAVIVKGGKNN 193 (216)
T ss_pred ecCcHHHHHHHHHcCCCCEEeeehhhhccc--CCccEEEEeCccccCCccccEEEEECCCCh
Confidence 3456778899999998 4 45566544322 22233333333 333456899999998854
No 45
>PF12849 PBP_like_2: PBP superfamily domain; InterPro: IPR024370 This entry represents members of the periplasmic binding domain superfamily []. It is often associated with a helix-turn-helix domain.; PDB: 1QUL_A 1OIB_A 1A54_A 1IXH_A 1A40_A 1QUJ_A 1A55_A 1IXI_A 2ABH_A 1QUK_A ....
Probab=23.69 E-value=1.8e+02 Score=22.10 Aligned_cols=58 Identities=10% Similarity=0.016 Sum_probs=41.2
Q ss_pred ccCHHHHHHHHhcCC-cEEEeehhhhHHHHh-cCCc-------eeEeccccCccceEEEecCCCCCc
Q psy10096 21 VSTYKEGIDRVLEGN-YAFLMESTMLDYIVQ-RNCN-------LTQIGGLLDSKGYGIATPMGHSGL 78 (125)
Q Consensus 21 v~~~~eGv~~vr~g~-~AfI~d~~~l~Y~~~-~~C~-------L~~vg~~f~~~gYgialp~gSpl~ 78 (125)
.....+|++.+.+|. +.-+.++++-.-... +.|. ......+|...+.+|++.+..|+.
T Consensus 44 ~~gS~~g~~~l~~g~~di~~~sr~l~~~e~~~~~~~~~~~~~~~~~~~~~va~d~i~iv~n~~np~~ 110 (281)
T PF12849_consen 44 SSGSGAGIQALINGKVDIAISSRPLTAAEIASEGYNAKGQKWGGGLVQIPVARDAIVIVVNKDNPLN 110 (281)
T ss_dssp EE-HHHHHHHHHTTSSSEEEESSHHHHHHHHHHTCCCCCHHHHCTEEEEEEEEEEEEEEEETTTTTE
T ss_pred eCCCHHHHHHHHhCCCEEEEeCCCCcHHHHhHhhhhhcccccccccEEEEEEEeeEEEEEcCCCccc
Confidence 356789999999998 666677777665442 2343 233445778888999999999988
No 46
>PRK01792 ribB 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional
Probab=23.24 E-value=36 Score=26.50 Aligned_cols=54 Identities=9% Similarity=0.095 Sum_probs=33.6
Q ss_pred ccCHHHHHHHHhcCCcEEEeehhhhHHHHhcCCceeEeccccCccceEEEecCCCCCc
Q psy10096 21 VSTYKEGIDRVLEGNYAFLMESTMLDYIVQRNCNLTQIGGLLDSKGYGIATPMGHSGL 78 (125)
Q Consensus 21 v~~~~eGv~~vr~g~~AfI~d~~~l~Y~~~~~C~L~~vg~~f~~~gYgialp~gSpl~ 78 (125)
..+++++|+.+++|+..+|+|..-- ...-+|....+...+..-+|.+..++.+.
T Consensus 13 ~~~i~~ai~al~~G~~Viv~Dde~R----EnEgDlv~aAe~~t~e~i~fm~~~~~Gli 66 (214)
T PRK01792 13 EERVINAINAFKQGNGVLVLDDEDR----ENEGDLIFPAETITPEQMAKLIRYGSGIV 66 (214)
T ss_pred cccHHHHHHHHHCCCeEEEEeCCCC----CccccEEEEhhhCCHHHHHHHHHHCCccE
Confidence 3679999999999998877775431 22255555555444544555555555444
No 47
>PRK11553 alkanesulfonate transporter substrate-binding subunit; Provisional
Probab=22.85 E-value=2.9e+02 Score=21.41 Aligned_cols=55 Identities=9% Similarity=-0.068 Sum_probs=33.6
Q ss_pred CHHHHHHHHhcCC-c-EEEeehhhhHHHHhcCCceeEecc-ccCccceEEEecCCCCCc
Q psy10096 23 TYKEGIDRVLEGN-Y-AFLMESTMLDYIVQRNCNLTQIGG-LLDSKGYGIATPMGHSGL 78 (125)
Q Consensus 23 ~~~eGv~~vr~g~-~-AfI~d~~~l~Y~~~~~C~L~~vg~-~f~~~gYgialp~gSpl~ 78 (125)
+..+-++.+.+|+ + +++...+.+. .....=++..++. .....+.+++++++||+.
T Consensus 65 ~~~~~~~aL~~G~iDia~~~~~~~~~-~~~~g~~~~~v~~~~~~~~~~~lvv~~~s~i~ 122 (314)
T PRK11553 65 AGPQMLEALNVGSIDLGSTGDIPPIF-AQAAGADLVYVGVEPPKPKAEVILVAENSPIK 122 (314)
T ss_pred CcHHHHHHHHcCCCCEEccCCHHHHH-HHhCCCCEEEEEEecCCCcceEEEEeCCCCCC
Confidence 3457788899998 4 4554333322 1223345556553 344455789999999987
No 48
>cd08427 PBP2_LTTR_like_2 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold. LysR-transcriptional regulators comprise the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controlled by the LTTRs have diverse functi
Probab=22.11 E-value=2.3e+02 Score=18.87 Aligned_cols=58 Identities=10% Similarity=0.036 Sum_probs=33.6
Q ss_pred cccCHHHHHHHHhcCC-cEEEeehhhhHHHHhcCCceeEeccccCccceEEEecCCCCCc
Q psy10096 20 FVSTYKEGIDRVLEGN-YAFLMESTMLDYIVQRNCNLTQIGGLLDSKGYGIATPMGHSGL 78 (125)
Q Consensus 20 ~v~~~~eGv~~vr~g~-~AfI~d~~~l~Y~~~~~C~L~~vg~~f~~~gYgialp~gSpl~ 78 (125)
.+++..-.++.+++|. .|++.+... .+..........+........++++.+++.+..
T Consensus 127 ~~~~~~~~~~~v~~g~gia~~p~~~~-~~~~~~~l~~~~~~~~~~~~~~~l~~~~~~~~~ 185 (195)
T cd08427 127 ELDSLEAIAAMVAQGLGVAIVPDIAV-PLPAGPRVRVLPLGDPAFSRRVGLLWRRSSPRS 185 (195)
T ss_pred EeccHHHHHHHHHhCCcEEEccHHHH-hhhccCceEEEECCCCCceEEEEEEEeCCccCC
Confidence 4678888899999998 677765443 322222222222333333456777777776543
No 49
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=21.82 E-value=83 Score=24.81 Aligned_cols=25 Identities=24% Similarity=0.436 Sum_probs=20.9
Q ss_pred ccCHHHHHHHHhc--CCcEEEeehhhh
Q psy10096 21 VSTYKEGIDRVLE--GNYAFLMESTML 45 (125)
Q Consensus 21 v~~~~eGv~~vr~--g~~AfI~d~~~l 45 (125)
.++.+|+++++|. |.+|+|..+-.+
T Consensus 8 a~~~~eal~~ik~elG~dAvIls~r~v 34 (282)
T TIGR03499 8 APTMREALAKVKEELGPDAVILSTRKV 34 (282)
T ss_pred cCCHHHHHHHHHHHHCCCcEEEEeeEe
Confidence 6899999999997 889988876553
No 50
>TIGR03339 phn_lysR aminoethylphosphonate catabolism associated LysR family transcriptional regulator. This group of sequences represents a number of related clades with numerous examples of members adjacent to operons for the degradation of 2-aminoethylphosphonate (AEP) in Pseudomonas, Ralstonia, Bordetella and Burkholderia species. These are transcriptional regulators of the LysR family which contain a helix-turn-helix (HTH) domain (pfam00126) and a periplasmic substrate-binding protein-like domain (pfam03466).
Probab=20.28 E-value=2.2e+02 Score=21.05 Aligned_cols=49 Identities=8% Similarity=-0.054 Sum_probs=32.1
Q ss_pred cCHHHHHHHHhcCC-cEEEeehhhhHHHHhcCCceeEeccccCccceEEEecCCCCCc
Q psy10096 22 STYKEGIDRVLEGN-YAFLMESTMLDYIVQRNCNLTQIGGLLDSKGYGIATPMGHSGL 78 (125)
Q Consensus 22 ~~~~eGv~~vr~g~-~AfI~d~~~l~Y~~~~~C~L~~vg~~f~~~gYgialp~gSpl~ 78 (125)
.+..+.++.+++|+ ++.|...+. .+.++ ....+....++++++++.|+.
T Consensus 120 ~~~~~~~~~l~~g~~Dl~i~~~~~------~~~~~--~~~~l~~~~~~lv~s~~~pl~ 169 (279)
T TIGR03339 120 GNSQEVLQALQSYRVDVAVSSEVV------DDPRL--DRVVLGNDPLVAVVHRQHPLA 169 (279)
T ss_pred CCHHHHHHHHHcCCCcEEEEeccc------CCCce--EEEEcCCceEEEEECCCCccc
Confidence 46778899999998 544432221 11222 224566778999999999986
Done!