Query psy2802
Match_columns 74
No_of_seqs 114 out of 510
Neff 7.3
Searched_HMMs 46136
Date Fri Aug 16 17:19:51 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2802.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/2802hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1054|consensus 99.7 2E-17 4.4E-22 122.3 4.7 74 1-74 693-766 (897)
2 KOG1053|consensus 99.7 3.8E-17 8.3E-22 124.4 2.7 69 1-74 710-781 (1258)
3 KOG4440|consensus 99.7 6.3E-17 1.4E-21 120.3 3.7 68 1-74 713-780 (993)
4 smart00079 PBPe Eukaryotic hom 99.2 3.2E-11 7E-16 72.8 5.6 60 12-74 49-108 (134)
5 KOG1052|consensus 99.0 5.3E-10 1.2E-14 82.9 6.3 72 1-74 474-547 (656)
6 PRK10797 glutamate and asparta 97.8 6.5E-05 1.4E-09 51.5 5.5 60 12-72 182-243 (302)
7 PRK11917 bifunctional adhesin/ 97.7 7.6E-05 1.6E-09 50.0 5.2 56 13-72 178-233 (259)
8 PRK11260 cystine transporter s 97.7 0.00012 2.5E-09 48.8 5.9 59 13-72 175-233 (266)
9 PRK09495 glnH glutamine ABC tr 97.7 0.00014 3E-09 47.8 6.1 59 13-72 157-216 (247)
10 TIGR01096 3A0103s03R lysine-ar 97.3 0.00096 2.1E-08 43.4 5.9 60 12-72 157-223 (250)
11 PF00497 SBP_bac_3: Bacterial 97.3 0.00045 9.6E-09 43.4 4.1 59 12-71 136-195 (225)
12 TIGR03871 ABC_peri_MoxJ_2 quin 96.9 0.0041 8.9E-08 40.1 6.1 56 15-71 141-202 (232)
13 PRK09959 hybrid sensory histid 96.9 0.0022 4.7E-08 50.5 5.2 60 12-72 432-493 (1197)
14 TIGR03870 ABC_MoxJ methanol ox 96.8 0.0041 8.9E-08 41.1 5.2 56 16-72 151-217 (246)
15 smart00062 PBPb Bacterial peri 96.7 0.009 1.9E-07 36.3 5.9 60 12-72 131-192 (219)
16 PRK15007 putative ABC transpor 96.6 0.0068 1.5E-07 39.3 5.4 56 14-71 153-213 (243)
17 COG0834 HisJ ABC-type amino ac 96.6 0.0075 1.6E-07 39.4 5.3 58 12-70 173-233 (275)
18 TIGR01098 3A0109s03R phosphate 96.5 0.0076 1.7E-07 39.4 5.1 56 14-70 180-238 (254)
19 PRK09959 hybrid sensory histid 96.5 0.0059 1.3E-07 48.1 5.0 60 12-72 189-250 (1197)
20 TIGR02995 ectoine_ehuB ectoine 96.4 0.011 2.3E-07 39.6 5.6 58 13-71 171-232 (275)
21 cd00134 PBPb Bacterial peripla 96.3 0.023 5.1E-07 34.6 6.0 59 12-71 130-190 (218)
22 PRK10859 membrane-bound lytic 96.1 0.02 4.3E-07 41.8 5.9 55 14-70 181-235 (482)
23 TIGR02285 conserved hypothetic 95.9 0.03 6.6E-07 37.2 5.8 57 14-71 169-230 (268)
24 PRK15010 ABC transporter lysin 95.8 0.041 8.9E-07 36.4 5.9 58 13-71 161-225 (260)
25 PRK15437 histidine ABC transpo 94.7 0.14 3.1E-06 33.8 5.9 59 12-71 160-225 (259)
26 PF00405 Transferrin: Transfer 83.8 2.2 4.8E-05 30.1 4.1 58 13-72 33-98 (330)
27 PF09084 NMT1: NMT1/THI5 like; 82.8 4.8 0.0001 25.4 5.1 58 14-73 28-85 (216)
28 PF02606 LpxK: Tetraacyldisacc 82.5 2 4.3E-05 30.3 3.5 57 13-71 112-168 (326)
29 TIGR03431 PhnD phosphonate ABC 82.3 4.1 8.9E-05 27.2 4.8 54 16-70 176-233 (288)
30 TIGR00682 lpxK tetraacyldisacc 82.1 2.1 4.5E-05 30.1 3.4 57 13-71 105-161 (311)
31 COG1663 LpxK Tetraacyldisaccha 81.0 3.1 6.8E-05 29.8 4.0 60 9-70 120-180 (336)
32 PRK01906 tetraacyldisaccharide 79.8 3.2 6.9E-05 29.5 3.8 56 13-71 132-188 (338)
33 PRK00652 lpxK tetraacyldisacch 77.6 3.2 6.9E-05 29.4 3.2 56 14-71 127-182 (325)
34 smart00094 TR_FER Transferrin. 69.8 16 0.00035 25.9 5.2 59 12-73 32-98 (332)
35 TIGR03261 phnS2 putative 2-ami 61.9 32 0.00069 23.5 5.4 58 12-72 198-258 (334)
36 TIGR01728 SsuA_fam ABC transpo 60.1 29 0.00063 22.5 4.8 56 15-73 37-93 (288)
37 PRK11553 alkanesulfonate trans 53.5 63 0.0014 21.8 5.7 57 16-74 65-122 (314)
38 TIGR01256 modA molybdenum ABC 53.2 45 0.00098 21.1 4.7 65 2-72 125-191 (216)
39 PF12974 Phosphonate-bd: ABC t 50.2 25 0.00055 22.8 3.2 57 12-69 141-200 (243)
40 PF03401 TctC: Tripartite tric 50.2 71 0.0015 21.6 5.5 34 12-46 136-169 (274)
41 PRK11553 alkanesulfonate trans 49.7 78 0.0017 21.3 5.8 46 16-62 164-209 (314)
42 PRK00489 hisG ATP phosphoribos 49.6 29 0.00064 23.6 3.6 50 13-69 139-188 (287)
43 TIGR00506 ribB 3,4-dihydroxy-2 42.2 12 0.00027 24.8 0.8 47 14-67 2-48 (199)
44 cd03829 Sina Seven in absentia 39.4 44 0.00095 20.8 2.9 34 13-48 85-118 (127)
45 PRK05773 3,4-dihydroxy-2-butan 38.5 16 0.00035 24.7 0.9 43 16-66 2-45 (219)
46 PF03466 LysR_substrate: LysR 36.2 95 0.0021 18.4 4.5 50 14-73 41-90 (209)
47 COG0077 PheA Prephenate dehydr 35.7 97 0.0021 21.7 4.4 58 10-70 28-93 (279)
48 TIGR03499 FlhF flagellar biosy 35.4 34 0.00074 23.4 2.1 28 13-40 7-34 (282)
49 PRK12723 flagellar biosynthesi 35.2 35 0.00077 24.8 2.3 28 14-41 9-36 (388)
50 cd05466 PBP2_LTTR_substrate Th 33.0 97 0.0021 17.6 4.4 48 16-73 37-84 (197)
51 PRK05703 flhF flagellar biosyn 32.7 45 0.00098 24.4 2.5 29 12-40 6-34 (424)
52 PRK00910 ribB 3,4-dihydroxy-2- 32.4 22 0.00048 24.0 0.8 47 14-67 14-60 (218)
53 PRK01792 ribB 3,4-dihydroxy-2- 32.4 23 0.0005 23.9 0.9 47 14-68 13-60 (214)
54 PF12849 PBP_like_2: PBP super 31.6 83 0.0018 20.7 3.5 60 13-73 43-109 (281)
55 TIGR01276 thiB thiamine ABC tr 31.4 1.6E+02 0.0036 19.7 6.8 69 2-72 165-236 (309)
56 TIGR03414 ABC_choline_bnd chol 30.7 1.8E+02 0.0039 19.9 5.6 53 16-69 44-99 (290)
57 PF14400 Transglut_i_TM: Inact 30.2 38 0.00081 21.9 1.6 21 49-69 45-65 (165)
58 PF08967 DUF1884: Domain of un 26.9 47 0.001 19.3 1.4 15 29-43 60-74 (85)
59 PF13379 NMT1_2: NMT1-like fam 26.8 1.9E+02 0.004 18.9 5.4 57 12-70 40-99 (252)
60 KOG3333|consensus 26.7 23 0.00049 23.1 0.1 35 37-71 24-58 (188)
61 cd08563 GDPD_TtGDE_like Glycer 26.7 75 0.0016 20.6 2.6 9 29-37 221-229 (230)
62 PF14503 YhfZ_C: YhfZ C-termin 26.4 74 0.0016 21.7 2.5 22 16-38 145-166 (232)
63 PRK00014 ribB 3,4-dihydroxy-2- 26.0 32 0.00069 23.5 0.7 45 15-66 19-63 (230)
64 PRK10677 modA molybdate transp 24.2 2.3E+02 0.0049 18.9 5.2 55 16-73 62-119 (257)
65 TIGR02136 ptsS_2 phosphate bin 23.9 81 0.0018 21.3 2.4 58 13-73 69-130 (287)
66 PF09419 PGP_phosphatase: Mito 23.7 1.8E+02 0.0039 18.7 3.9 42 18-59 95-147 (168)
67 PRK14721 flhF flagellar biosyn 23.4 72 0.0016 23.5 2.2 28 12-39 6-33 (420)
68 cd08581 GDPD_like_1 Glyceropho 23.4 93 0.002 20.4 2.6 24 13-38 206-229 (229)
69 TIGR03339 phn_lysR aminoethylp 23.2 2.1E+02 0.0047 18.3 5.0 50 14-73 119-168 (279)
70 PF00455 DeoRC: DeoR C termina 23.0 1.7E+02 0.0037 18.2 3.6 56 10-65 21-79 (161)
71 PRK14723 flhF flagellar biosyn 22.9 80 0.0017 25.2 2.4 29 12-40 6-34 (767)
72 PF05078 DUF679: Protein of un 22.0 60 0.0013 21.2 1.4 12 59-70 65-76 (170)
73 PF13344 Hydrolase_6: Haloacid 21.3 1.6E+02 0.0034 16.8 3.0 27 12-38 14-40 (101)
74 PF12062 HSNSD: heparan sulfat 20.4 38 0.00082 25.6 0.3 33 1-38 362-394 (487)
75 PRK11119 proX glycine betaine 20.1 3.1E+02 0.0067 19.3 4.8 55 16-71 66-123 (331)
No 1
>KOG1054|consensus
Probab=99.69 E-value=2e-17 Score=122.34 Aligned_cols=74 Identities=57% Similarity=0.997 Sum_probs=71.9
Q ss_pred ChhHhhhccCcccccCHHHHHHHHhhcCCceEEEeccchhHHHHhhCCCCeEEeCCcCCccceEEEecCCCCCC
Q psy2802 1 MYYFMQMHKDKVFVSSETEGVNKVRSSHGKYAFLIESPRNDYENARQPCDTMKVGNNLDVKGFGVATPIGSPLK 74 (74)
Q Consensus 1 ~w~~m~~~~~~~~v~~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~c~L~~vg~~f~~~~ygia~~k~Spl~ 74 (74)
||.+|++..|+++|.+..||++|||.++|+|||+.+++.-+|.-++.|||.+.||...+..|||||.|+||.||
T Consensus 693 MW~yM~SaepsVFv~t~aeGv~rVRksKGkyAfLLEsTmNey~eqRkPCDTMKVGgNLds~GYGiATp~Gsslr 766 (897)
T KOG1054|consen 693 MWTYMKSAEPSVFVRTTAEGVARVRKSKGKYAFLLESTMNEYIEQRKPCDTMKVGGNLDSKGYGIATPKGSSLR 766 (897)
T ss_pred HHHHHhcCCcceeeehhhhHHHHHHhcCCceEeehHhhhhhhhhccCCccceecccccCCcceeecCCCCcccc
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999886
No 2
>KOG1053|consensus
Probab=99.65 E-value=3.8e-17 Score=124.39 Aligned_cols=69 Identities=20% Similarity=0.438 Sum_probs=64.3
Q ss_pred ChhHhhhccCcccccCHHHHHHHHhhcCCceEEEeccchhHHHHhhCC-CCeEEeC--CcCCccceEEEecCCCCCC
Q psy2802 1 MYYFMQMHKDKVFVSSETEGVNKVRSSHGKYAFLIESPRNDYENARQP-CDTMKVG--NNLDVKGFGVATPIGSPLK 74 (74)
Q Consensus 1 ~w~~m~~~~~~~~v~~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~-c~L~~vg--~~f~~~~ygia~~k~Spl~ 74 (74)
|++||.+. ..+++++|++.++.|+ .||||+|.++|+|.+.++. |+|.+|| ..|...|||||+|||||++
T Consensus 710 MHeYM~ky----Nq~~v~dal~sLK~gK-LDAFIyDaAVLnY~agkDegCKLvTIGsgKvFAttGYGIal~k~Spwk 781 (1258)
T KOG1053|consen 710 MHEYMVKY----NQPGVEDALESLKNGK-LDAFIYDAAVLNYMAGKDEGCKLVTIGSGKVFATTGYGIALPKNSPWK 781 (1258)
T ss_pred HHHHHHHh----ccCchHHHHHHHhccc-chhHHHHHHHHHHhhccCCCceEEEecCCceeeecceeeecCCCCcch
Confidence 68888875 4899999999999987 9999999999999999998 9999999 8999999999999999985
No 3
>KOG4440|consensus
Probab=99.65 E-value=6.3e-17 Score=120.34 Aligned_cols=68 Identities=28% Similarity=0.568 Sum_probs=64.2
Q ss_pred ChhHhhhccCcccccCHHHHHHHHhhcCCceEEEeccchhHHHHhhCCCCeEEeCCcCCccceEEEecCCCCCC
Q psy2802 1 MYYFMQMHKDKVFVSSETEGVNKVRSSHGKYAFLIESPRNDYENARQPCDTMKVGNNLDVKGFGVATPIGSPLK 74 (74)
Q Consensus 1 ~w~~m~~~~~~~~v~~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~c~L~~vg~~f~~~~ygia~~k~Spl~ 74 (74)
||++|+.|+ +.+..|+|+.|++|+ .+|||||++.|+|.++|+ |+|.+.|+.|+..+|||+++||||++
T Consensus 713 MyR~ME~hN----y~~A~eAiq~v~~gk-L~AFIWDS~rLEfEAs~~-CeLvT~GeLFgRSgyGIGlqK~SPWt 780 (993)
T KOG4440|consen 713 MYRHMEKHN----YESAAEAIQAVRDGK-LHAFIWDSARLEFEASQK-CELVTTGELFGRSGYGIGLQKDSPWT 780 (993)
T ss_pred HHHhhhhcc----hhhHHHHHHHHHcCc-eeEEEeecceeeehhhcc-cceEeccccccccccccccccCCCCc
Confidence 678898875 899999999999987 999999999999999999 99999999999999999999999985
No 4
>smart00079 PBPe Eukaryotic homologues of bacterial periplasmic substrate binding proteins. Prokaryotic homologues are represented by a separate alignment: PBPb
Probab=99.22 E-value=3.2e-11 Score=72.82 Aligned_cols=60 Identities=57% Similarity=0.945 Sum_probs=54.0
Q ss_pred ccccCHHHHHHHHhhcCCceEEEeccchhHHHHhhCCCCeEEeCCcCCccceEEEecCCCCCC
Q psy2802 12 VFVSSETEGVNKVRSSHGKYAFLIESPRNDYENARQPCDTMKVGNNLDVKGFGVATPIGSPLK 74 (74)
Q Consensus 12 ~~v~~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~c~L~~vg~~f~~~~ygia~~k~Spl~ 74 (74)
..+++..+++..|+.|+ ||++.|.+++.|++++. |++.+++..|...+|||+++|||+|+
T Consensus 49 ~~~~~~~~~~~~l~~g~--da~v~d~~~~~~~~~~~-~~~~~~~~~~~~~~~~ia~~k~~~l~ 108 (134)
T smart00079 49 VFVKSYAEGVQRVRVSN--YAFLMESTYLDYELSQN-CDLMTVGENFGRKGYGIAFPKGSPLR 108 (134)
T ss_pred CCCCCHHHHHHHHHcCC--CEEEeehHhHHHHHhCC-CCeEEcCcccCCCceEEEecCCCHHH
Confidence 35788999999999964 99999999999998875 99999999999999999999999874
No 5
>KOG1052|consensus
Probab=99.04 E-value=5.3e-10 Score=82.91 Aligned_cols=72 Identities=39% Similarity=0.615 Sum_probs=64.3
Q ss_pred ChhHhhhccCcccccCHHHHHHHHhhcC-CceEEEeccchhHHHHhhCC-CCeEEeCCcCCccceEEEecCCCCCC
Q psy2802 1 MYYFMQMHKDKVFVSSETEGVNKVRSSH-GKYAFLIESPRNDYENARQP-CDTMKVGNNLDVKGFGVATPIGSPLK 74 (74)
Q Consensus 1 ~w~~m~~~~~~~~v~~~~egv~~~~~~~-g~~A~i~d~~~l~y~~~~~~-c~L~~vg~~f~~~~ygia~~k~Spl~ 74 (74)
||..|.. ++...+.+.+|++++++.+. |-+|++.|...+.|...++. |++.++++.|...+|| ++|+||||+
T Consensus 474 ~~~~~~~-~~~~~~~~~~e~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~v~~~~~~~~~~-~~~~~Spl~ 547 (656)
T KOG1052|consen 474 MWAFKVS-QRSVPLASPEEGVERVRKGPSGGYAFASDELYLAYLFLRDEICDLTEVGEPFLYKGYG-AFPKGSPLR 547 (656)
T ss_pred HHhhhcc-CCCccCCCHHHHHHHHHcCCCCceEEEeccHHHHHHHhhcCCCceEEeCCcccCCCcc-eecCCCccH
Confidence 5777764 47889999999999999974 25999999999999998877 9999999999999999 999999985
No 6
>PRK10797 glutamate and aspartate transporter subunit; Provisional
Probab=97.79 E-value=6.5e-05 Score=51.53 Aligned_cols=60 Identities=17% Similarity=0.269 Sum_probs=49.2
Q ss_pred ccccCHHHHHHHHhhcCCceEEEeccchhHHHHhhC--CCCeEEeCCcCCccceEEEecCCCC
Q psy2802 12 VFVSSETEGVNKVRSSHGKYAFLIESPRNDYENARQ--PCDTMKVGNNLDVKGFGVATPIGSP 72 (74)
Q Consensus 12 ~~v~~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~--~c~L~~vg~~f~~~~ygia~~k~Sp 72 (74)
..+++..++++.|.+|+ +||+|.|.+++.+.+.+. +-.+.+++..+...+||++++++++
T Consensus 182 ~~~~~~~~~l~~L~~Gr-vDa~i~d~~~~~~~~~~~~~~~~l~i~~~~~~~~~~~~a~~k~~~ 243 (302)
T PRK10797 182 ISAKDHGDSFRTLESGR-AVAFMMDDALLAGERAKAKKPDNWEIVGKPQSQEAYGCMLRKDDP 243 (302)
T ss_pred EEeCCHHHHHHHHHcCC-ceEEEccHHHHHHHHHcCCCCcceEECCccCCcCceeEEEeCCCH
Confidence 45678899999999975 999999999887755432 3558889998888999999999864
No 7
>PRK11917 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed
Probab=97.74 E-value=7.6e-05 Score=49.97 Aligned_cols=56 Identities=9% Similarity=0.069 Sum_probs=47.1
Q ss_pred cccCHHHHHHHHhhcCCceEEEeccchhHHHHhhCCCCeEEeCCcCCccceEEEecCCCC
Q psy2802 13 FVSSETEGVNKVRSSHGKYAFLIESPRNDYENARQPCDTMKVGNNLDVKGFGVATPIGSP 72 (74)
Q Consensus 13 ~v~~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~c~L~~vg~~f~~~~ygia~~k~Sp 72 (74)
.+++..++++.+..|+ +||++.|.+++.++..++ ..+++..+...+||++++++++
T Consensus 178 ~~~~~~~~~~~l~~Gr-vDa~~~d~~~~~~~~~~~---~~~~~~~~~~~~~~~a~~k~~~ 233 (259)
T PRK11917 178 EFPDYPSIKAALDAKR-VDAFSVDKSILLGYVDDK---SEILPDSFEPQSYGIVTKKDDP 233 (259)
T ss_pred ecCCHHHHHHHHHcCC-CcEEEecHHHHHHhhhcC---CeecCCcCCCCceEEEEeCCCH
Confidence 4678899999999975 999999999888776653 4677888899999999999874
No 8
>PRK11260 cystine transporter subunit; Provisional
Probab=97.73 E-value=0.00012 Score=48.77 Aligned_cols=59 Identities=15% Similarity=0.129 Sum_probs=49.9
Q ss_pred cccCHHHHHHHHhhcCCceEEEeccchhHHHHhhCCCCeEEeCCcCCccceEEEecCCCC
Q psy2802 13 FVSSETEGVNKVRSSHGKYAFLIESPRNDYENARQPCDTMKVGNNLDVKGFGVATPIGSP 72 (74)
Q Consensus 13 ~v~~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~c~L~~vg~~f~~~~ygia~~k~Sp 72 (74)
.+++..++++.+.+|+ +|++|.|...+.+++++.+-.+.+....+.+.+++|+++++++
T Consensus 175 ~~~~~~~~l~~L~~Gr-vD~~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~ 233 (266)
T PRK11260 175 TYDDDPTKYQDLRVGR-IDAILVDRLAALDLVKKTNDTLAVAGEAFSRQESGVALRKGNP 233 (266)
T ss_pred ecCCHHHHHHHHHcCC-CCEEEechHHHHHHHHhCCCcceecCCccccCceEEEEeCCCH
Confidence 4678899999999975 9999999999999998876446666778888999999999764
No 9
>PRK09495 glnH glutamine ABC transporter periplasmic protein; Reviewed
Probab=97.72 E-value=0.00014 Score=47.78 Aligned_cols=59 Identities=20% Similarity=0.268 Sum_probs=50.1
Q ss_pred cccCHHHHHHHHhhcCCceEEEeccchhHHHHhhCC-CCeEEeCCcCCccceEEEecCCCC
Q psy2802 13 FVSSETEGVNKVRSSHGKYAFLIESPRNDYENARQP-CDTMKVGNNLDVKGFGVATPIGSP 72 (74)
Q Consensus 13 ~v~~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~-c~L~~vg~~f~~~~ygia~~k~Sp 72 (74)
.+++..++++++.+|+ +||++.|..++.|++++.. -++..++..+....|+|++++++.
T Consensus 157 ~~~~~~~~~~~L~~gr-vDa~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~ 216 (247)
T PRK09495 157 QFPNIDNAYLELGTGR-ADAVLHDTPNILYFIKTAGNGQFKAVGDSLEAQQYGIAFPKGSE 216 (247)
T ss_pred EcCCHHHHHHHHHcCc-eeEEEeChHHHHHHHHhCCCCceEEecCcccccceEEEEcCcHH
Confidence 4678889999999875 9999999999999988765 567888887788899999999864
No 10
>TIGR01096 3A0103s03R lysine-arginine-ornithine-binding periplasmic protein.
Probab=97.30 E-value=0.00096 Score=43.37 Aligned_cols=60 Identities=17% Similarity=0.183 Sum_probs=47.3
Q ss_pred ccccCHHHHHHHHhhcCCceEEEeccchhHHHHhhCC--CCeEEeCCcCCcc-----ceEEEecCCCC
Q psy2802 12 VFVSSETEGVNKVRSSHGKYAFLIESPRNDYENARQP--CDTMKVGNNLDVK-----GFGVATPIGSP 72 (74)
Q Consensus 12 ~~v~~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~--c~L~~vg~~f~~~-----~ygia~~k~Sp 72 (74)
..+.+.+++++++.+|+ +|++|.|.+.+.+++++.+ .++.++...+... .++|+++++++
T Consensus 157 ~~~~s~~~~~~~L~~g~-vD~~v~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~ 223 (250)
T TIGR01096 157 VEYDSYDNANMDLKAGR-IDAVFTDASVLAEGFLKPPNGKDFKFVGPSVTDEKYFGDGYGIGLRKGDT 223 (250)
T ss_pred EEcCCHHHHHHHHHcCC-CCEEEeCHHHHHHHHHhCCCCCceEEeccccccccccCCceEEEEeCCCH
Confidence 34678999999999975 9999999999999988764 3477776654432 48899998763
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=97.29 E-value=0.00045 Score=43.40 Aligned_cols=59 Identities=19% Similarity=0.221 Sum_probs=47.8
Q ss_pred ccccCHHHHHHHHhhcCCceEEEeccchhHHHHhhCC-CCeEEeCCcCCccceEEEecCCC
Q psy2802 12 VFVSSETEGVNKVRSSHGKYAFLIESPRNDYENARQP-CDTMKVGNNLDVKGFGVATPIGS 71 (74)
Q Consensus 12 ~~v~~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~-c~L~~vg~~f~~~~ygia~~k~S 71 (74)
..+.+.+++++++++|. .||+|.+...+.|++++.+ ..............+++++.++.
T Consensus 136 ~~~~~~~~~~~~l~~g~-~d~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 195 (225)
T PF00497_consen 136 VEVDSPEEALEALLSGR-IDAFIVDESTAEYLLKRHPLENIVVIPPPISPSPVYFAVRKKN 195 (225)
T ss_dssp EEESSHHHHHHHHHTTS-SSEEEEEHHHHHHHHHHTTTCEEEEEEEEEEEEEEEEEEETTT
T ss_pred cccccHHHHHHHHhcCC-eeeeeccchhhhhhhhhcccccccccccccccceeEEeecccc
Confidence 45789999999999975 9999999999999999987 44444466667777888887644
No 12
>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=96.93 E-value=0.0041 Score=40.11 Aligned_cols=56 Identities=11% Similarity=-0.032 Sum_probs=41.2
Q ss_pred cCHHHHHHHHhhcCCceEEEeccchhHHHHhhCCCCeEEeCCcC------CccceEEEecCCC
Q psy2802 15 SSETEGVNKVRSSHGKYAFLIESPRNDYENARQPCDTMKVGNNL------DVKGFGVATPIGS 71 (74)
Q Consensus 15 ~~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~c~L~~vg~~f------~~~~ygia~~k~S 71 (74)
.+..++++.|.+|+ +||+|.|..++.|++++.+-.+.+..... ....++|++++++
T Consensus 141 ~~~~~~~~~l~~G~-~Da~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 202 (232)
T TIGR03871 141 SPPGRMVEDLAAGE-IDVAIVWGPIAGYFAKQAGPPLVVVPLLPEDGGIPFDYRIAMGVRKGD 202 (232)
T ss_pred CCHHHHHHHHHcCC-cCEEEeccHHHHHHHHhCCCCceeeccccCCCCCCccceEEEEEecCC
Confidence 36789999999976 99999999999998876543455544332 2235688888865
No 13
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=96.88 E-value=0.0022 Score=50.46 Aligned_cols=60 Identities=15% Similarity=0.162 Sum_probs=48.1
Q ss_pred ccccCHHHHHHHHhhcCCceEEEeccchhHHHHhhCC-CCe-EEeCCcCCccceEEEecCCCC
Q psy2802 12 VFVSSETEGVNKVRSSHGKYAFLIESPRNDYENARQP-CDT-MKVGNNLDVKGFGVATPIGSP 72 (74)
Q Consensus 12 ~~v~~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~-c~L-~~vg~~f~~~~ygia~~k~Sp 72 (74)
..+++..+++++|.+|+ +||+|.+.+++.|++++.. -++ .+....+....++||++++.|
T Consensus 432 ~~~~~~~~~l~av~~G~-~Da~i~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~av~k~~~ 493 (1197)
T PRK09959 432 IKVDNASAAFHKVKEGE-LDALVATQLNSRYMIDHYYPNELYHFLIPGVPNASLSFAFPRGEP 493 (1197)
T ss_pred EEcCCHHHHHHHHHcCC-CCEEehhhHHHHHHHHhcccccceeeecCCCCchheEEeeCCCCH
Confidence 45889999999999976 9999999999999998753 333 334445566789999999875
No 14
>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=96.77 E-value=0.0041 Score=41.11 Aligned_cols=56 Identities=7% Similarity=-0.026 Sum_probs=39.2
Q ss_pred CHHHHHHHHhhcCCceEEEeccchhHHHHhhCC--CCeEEeCCcC-------Ccc--ceEEEecCCCC
Q psy2802 16 SETEGVNKVRSSHGKYAFLIESPRNDYENARQP--CDTMKVGNNL-------DVK--GFGVATPIGSP 72 (74)
Q Consensus 16 ~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~--c~L~~vg~~f-------~~~--~ygia~~k~Sp 72 (74)
+..++++.|+.|+ +||+|.|.+.+.+++++++ ..+..+++.+ .+. .+|||++|+++
T Consensus 151 ~~~~~~~aL~~Gr-vDa~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iav~k~~~ 217 (246)
T TIGR03870 151 DPRKLVSEVATGK-ADLAVAFAPEVARYVKASPEPLRMTVIPDDATRSDGAKIPMQYDQSMGVRKDDT 217 (246)
T ss_pred CHHHHHHHHHcCC-CCEEEeeHHhHHHHHHhCCCCceEEeccccccccCCCCcceeeEEEEEEccCCH
Confidence 3578999999975 9999999888888887643 2333344332 112 46999999874
No 15
>smart00062 PBPb Bacterial periplasmic substrate-binding proteins. bacterial proteins, eukaryotic ones are in PBPe
Probab=96.68 E-value=0.009 Score=36.34 Aligned_cols=60 Identities=22% Similarity=0.321 Sum_probs=48.8
Q ss_pred ccccCHHHHHHHHhhcCCceEEEeccchhHHHHhhCC-CCeEEeCCcCCc-cceEEEecCCCC
Q psy2802 12 VFVSSETEGVNKVRSSHGKYAFLIESPRNDYENARQP-CDTMKVGNNLDV-KGFGVATPIGSP 72 (74)
Q Consensus 12 ~~v~~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~-c~L~~vg~~f~~-~~ygia~~k~Sp 72 (74)
..+++..+.+.++..|+ .||++.+.+.+.+...+.+ +.+.++...... ..+++++.++++
T Consensus 131 ~~~~~~~~~~~~l~~g~-~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 192 (219)
T smart00062 131 VSYDSQAEALAALKAGR-ADAAVADAPALAALVKQHGLPELKIVGDPLDTPEGYAFAVRKGDP 192 (219)
T ss_pred EEcCCHHHHHHHhhcCc-ccEEEeccHHHHHHHHhcCCCceeeccCCCCCCcceEEEEECCCH
Confidence 34667899999999875 9999999999999887765 778887766555 789999998764
No 16
>PRK15007 putative ABC transporter arginine-biding protein; Provisional
Probab=96.63 E-value=0.0068 Score=39.35 Aligned_cols=56 Identities=14% Similarity=0.114 Sum_probs=42.6
Q ss_pred ccCHHHHHHHHhhcCCceEEEeccchhHHHHhhCCCCeEEeCCcCC-----ccceEEEecCCC
Q psy2802 14 VSSETEGVNKVRSSHGKYAFLIESPRNDYENARQPCDTMKVGNNLD-----VKGFGVATPIGS 71 (74)
Q Consensus 14 v~~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~c~L~~vg~~f~-----~~~ygia~~k~S 71 (74)
+++.+++++++..|+ +||++.|..++.|++.+. .++..++..+. ..+++|++++++
T Consensus 153 ~~~~~~~~~~L~~gr-vDa~i~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 213 (243)
T PRK15007 153 YDSYQNAKLDLQNGR-IDAVFGDTAVVTEWLKDN-PKLAAVGDKVTDKDYFGTGLGIAVRQGN 213 (243)
T ss_pred cCCHHHHHHHHHcCC-CCEEEeCHHHHHHHHhcC-CCceeecCcccccccCCcceEEEEeCCC
Confidence 568899999999875 999999999999988776 35555554332 335789998865
No 17
>COG0834 HisJ ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]
Probab=96.57 E-value=0.0075 Score=39.38 Aligned_cols=58 Identities=16% Similarity=0.022 Sum_probs=43.7
Q ss_pred ccccCHHHHHHHHhhcCCceEEEeccchhHH--HHhhCCCCeEEeCCcCCc-cceEEEecCC
Q psy2802 12 VFVSSETEGVNKVRSSHGKYAFLIESPRNDY--ENARQPCDTMKVGNNLDV-KGFGVATPIG 70 (74)
Q Consensus 12 ~~v~~~~egv~~~~~~~g~~A~i~d~~~l~y--~~~~~~c~L~~vg~~f~~-~~ygia~~k~ 70 (74)
..+++..+++..+++|+ +||++.|.+++.+ ...+.+-........+.. ..||++++++
T Consensus 173 ~~~~~~~~~~~al~~Gr-~Da~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 233 (275)
T COG0834 173 VAYDSNAEALLALKNGR-ADAVVSDSAVLAGLKLLKKNPGLYVLLVFPGLSVEYLGIALRKG 233 (275)
T ss_pred EeeCCHHHHHHHHHcCC-ccEEEcchHhhhhhhhhhcCCCCceeeeccCCCcceeEEEeccC
Confidence 45778889999999975 9999999999999 444443333344444444 7899999998
No 18
>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=96.52 E-value=0.0076 Score=39.42 Aligned_cols=56 Identities=13% Similarity=-0.052 Sum_probs=46.5
Q ss_pred ccCHHHHHHHHhhcCCceEEEeccchhHHHHhhCC---CCeEEeCCcCCccceEEEecCC
Q psy2802 14 VSSETEGVNKVRSSHGKYAFLIESPRNDYENARQP---CDTMKVGNNLDVKGFGVATPIG 70 (74)
Q Consensus 14 v~~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~---c~L~~vg~~f~~~~ygia~~k~ 70 (74)
+.+..+.++.++.|+ .||.+.+.+.+.++..+.+ -++.+++..+...+++|+++++
T Consensus 180 ~~~~~~~~~al~~G~-~Da~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 238 (254)
T TIGR01098 180 SGSHDASALAVANGK-VDAATNNSSAIGRLKKRGPSDMKKVRVIWKSPLIPNDPIAVRKD 238 (254)
T ss_pred cCchHHHHHHHHcCC-CCeEEecHHHHHHHHHhCccchhheEEEEecCCCCCCCEEEECC
Confidence 344678999999876 9999999999988776653 4789999888878899999997
No 19
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=96.47 E-value=0.0059 Score=48.09 Aligned_cols=60 Identities=10% Similarity=-0.133 Sum_probs=47.6
Q ss_pred ccccCHHHHHHHHhhcCCceEEEeccchhHHHHhhCC-CCeEEeCCc-CCccceEEEecCCCC
Q psy2802 12 VFVSSETEGVNKVRSSHGKYAFLIESPRNDYENARQP-CDTMKVGNN-LDVKGFGVATPIGSP 72 (74)
Q Consensus 12 ~~v~~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~-c~L~~vg~~-f~~~~ygia~~k~Sp 72 (74)
+.+++..+++++|..|+ +||+|.+.+++.|++++.. -++.+++.. .....++++++++.+
T Consensus 189 ~~~~s~~~al~av~~G~-~Da~i~~~~~~~~~i~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~ 250 (1197)
T PRK09959 189 ISFTNLYQALASVSAGQ-NDYFIGSNIITSSMISRYFTHSLNVVKYYNSPRQYNFFLTRKESV 250 (1197)
T ss_pred EeCCCHHHHHHHHHcCC-CCEEEccHHHHHHHHhcccccceEEEeeccCCCCceeEEEcCCcH
Confidence 57899999999999986 9999999999999998765 567766543 233446688888775
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=96.44 E-value=0.011 Score=39.61 Aligned_cols=58 Identities=10% Similarity=-0.030 Sum_probs=42.4
Q ss_pred cccCHHHHHHHHhhcCCceEEEeccchhHHHHhhCC-CCeEEeCCc-CCc--cceEEEecCCC
Q psy2802 13 FVSSETEGVNKVRSSHGKYAFLIESPRNDYENARQP-CDTMKVGNN-LDV--KGFGVATPIGS 71 (74)
Q Consensus 13 ~v~~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~-c~L~~vg~~-f~~--~~ygia~~k~S 71 (74)
.+++.+++++.|..|+ +||+|.|.+++.|++++.. -++..+... ..+ ..++|++++++
T Consensus 171 ~~~~~~~~i~~L~~gr-vDa~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 232 (275)
T TIGR02995 171 VVPDGQSGLKMVQDGR-ADAYSLTVLTINDLASKAGDPNVEVLAPFKDAPVRYYGGAAFRPED 232 (275)
T ss_pred EeCCHHHHHHHHHcCC-CCEEecChHHHHHHHHhCCCCCceeecCccCCccccceeEEECCCC
Confidence 5688999999999975 9999999999999988754 355544321 111 23488888765
No 21
>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=96.27 E-value=0.023 Score=34.63 Aligned_cols=59 Identities=20% Similarity=0.267 Sum_probs=45.0
Q ss_pred ccccCHHHHHHHHhhcCCceEEEeccchhHHHHhhCCCCeEEeCCc--CCccceEEEecCCC
Q psy2802 12 VFVSSETEGVNKVRSSHGKYAFLIESPRNDYENARQPCDTMKVGNN--LDVKGFGVATPIGS 71 (74)
Q Consensus 12 ~~v~~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~c~L~~vg~~--f~~~~ygia~~k~S 71 (74)
..+.+.++.++.+.+|. .||++.+.+...+..++.++++.++... ..+..++|+..+++
T Consensus 130 ~~~~~~~~~~~~l~~g~-~d~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~ 190 (218)
T cd00134 130 VSYDDNAEALAALENGR-ADAVIVDEIALAALLKKHPPELKIVGPSIDLEPLGFGVAVGKDN 190 (218)
T ss_pred EEeCCHHHHHHHHHcCC-ccEEEeccHHHHHHHHhcCCCcEEeccccCCCccceEEEEcCCC
Confidence 45778899999999975 9999999999999887655778877664 34445566666554
No 22
>PRK10859 membrane-bound lytic transglycosylase F; Provisional
Probab=96.13 E-value=0.02 Score=41.79 Aligned_cols=55 Identities=11% Similarity=-0.025 Sum_probs=43.1
Q ss_pred ccCHHHHHHHHhhcCCceEEEeccchhHHHHhhCCCCeEEeCCcCCccceEEEecCC
Q psy2802 14 VSSETEGVNKVRSSHGKYAFLIESPRNDYENARQPCDTMKVGNNLDVKGFGVATPIG 70 (74)
Q Consensus 14 v~~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~c~L~~vg~~f~~~~ygia~~k~ 70 (74)
..+.++++++|.+|+ +||+|.|..++.+..... -++.+......+.+++++++++
T Consensus 181 ~~s~~e~l~aL~~G~-iDa~v~d~~~~~~~~~~~-p~l~v~~~l~~~~~~~~av~k~ 235 (482)
T PRK10859 181 DKDSEELLEQVAEGK-IDYTIADSVEISLNQRYH-PELAVAFDLTDEQPVAWALPPS 235 (482)
T ss_pred CCCHHHHHHHHHCCC-CCEEEECcHHHHHHHHhC-CCceeeeecCCCceeEEEEeCC
Confidence 468999999999975 999999999887654444 4566665555677899999984
No 23
>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=95.95 E-value=0.03 Score=37.23 Aligned_cols=57 Identities=11% Similarity=-0.070 Sum_probs=41.3
Q ss_pred ccCHHHHHHHHhhcCCceEEEeccchhHHHHhhCC---CCeEEeCCcC--CccceEEEecCCC
Q psy2802 14 VSSETEGVNKVRSSHGKYAFLIESPRNDYENARQP---CDTMKVGNNL--DVKGFGVATPIGS 71 (74)
Q Consensus 14 v~~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~---c~L~~vg~~f--~~~~ygia~~k~S 71 (74)
.++..+.+++|..|. +||++.|..++.|++++.+ ..+..+.... ....++|++++++
T Consensus 169 ~~~~~~~~~~L~~Gr-vD~~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~k~~ 230 (268)
T TIGR02285 169 NAAMGNLFKMLEKGR-VNYTLAYPPEKTYYEELNNGALPPLKFLPVAGMPAHISVWVACPKTE 230 (268)
T ss_pred cchHHHHHHHHHcCC-ccEEEeCcHHHHHHHHhccCCcCCeeEeecCCCccceEEEEEeCCCH
Confidence 456777899999975 9999999999999987532 3455543222 2235899999864
No 24
>PRK15010 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional
Probab=95.81 E-value=0.041 Score=36.38 Aligned_cols=58 Identities=12% Similarity=-0.023 Sum_probs=40.1
Q ss_pred cccCHHHHHHHHhhcCCceEEEeccchhHH-HHhhCC-CCeEEeCCcC-----CccceEEEecCCC
Q psy2802 13 FVSSETEGVNKVRSSHGKYAFLIESPRNDY-ENARQP-CDTMKVGNNL-----DVKGFGVATPIGS 71 (74)
Q Consensus 13 ~v~~~~egv~~~~~~~g~~A~i~d~~~l~y-~~~~~~-c~L~~vg~~f-----~~~~ygia~~k~S 71 (74)
.+++.+++++++..|+ +||+|.|..++.+ +.++.. -++..++... ...+++||++++.
T Consensus 161 ~~~~~~~~~~~l~~gr-iDa~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~ 225 (260)
T PRK15010 161 AYANQDLVYSDLAAGR-LDAALQDEVAASEGFLKQPAGKDFAFAGPSVKDKKYFGDGTGVGLRKDD 225 (260)
T ss_pred ecCCHHHHHHHHHcCC-ccEEEeCcHHHHHHHHhCCCCCceEEecCccccccccCCceEEEEeCCC
Confidence 3577889999999975 9999999988876 444422 3455554332 2234689999865
No 25
>PRK15437 histidine ABC transporter substrate-binding protein HisJ; Provisional
Probab=94.74 E-value=0.14 Score=33.77 Aligned_cols=59 Identities=12% Similarity=-0.058 Sum_probs=39.1
Q ss_pred ccccCHHHHHHHHhhcCCceEEEeccchhHH-HHhhCC-CCeEEeCC-----cCCccceEEEecCCC
Q psy2802 12 VFVSSETEGVNKVRSSHGKYAFLIESPRNDY-ENARQP-CDTMKVGN-----NLDVKGFGVATPIGS 71 (74)
Q Consensus 12 ~~v~~~~egv~~~~~~~g~~A~i~d~~~l~y-~~~~~~-c~L~~vg~-----~f~~~~ygia~~k~S 71 (74)
+.+++..+++++|..|+ +|+++.|...+.+ +.++.. -++.+.+. .+....++|+++++.
T Consensus 160 ~~~~~~~~~i~~L~~gr-vD~~v~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~ia~~~~~ 225 (259)
T PRK15437 160 VSYQGQDNIYSDLTAGR-IDAAFQDEVAASEGFLKQPVGKDYKFGGPSVKDEKLFGVGTGMGLRKED 225 (259)
T ss_pred EecCCHHHHHHHHHcCC-ccEEEechHHHHHHHHhCCCCCceEEecCccccccccCcceEEEEeCCC
Confidence 34678889999999865 9999999988765 333322 33444332 333345789998754
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=83.77 E-value=2.2 Score=30.12 Aligned_cols=58 Identities=10% Similarity=0.108 Sum_probs=40.7
Q ss_pred cccCHHHHHHHHhhcCCceEEEeccchhHHHHhhCCCCeE-EeCCcCC------ccceEEEecC-CCC
Q psy2802 13 FVSSETEGVNKVRSSHGKYAFLIESPRNDYENARQPCDTM-KVGNNLD------VKGFGVATPI-GSP 72 (74)
Q Consensus 13 ~v~~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~c~L~-~vg~~f~------~~~ygia~~k-~Sp 72 (74)
...+..+.++++++|+ .|+++.|..-+ |.+....++|. ++.|... ...|++|+-| +|.
T Consensus 33 ~~~s~~dCm~~I~~g~-AD~v~ld~~~~-y~A~~~~~~L~pi~~E~y~~~~~~~~~y~aVAVVkk~s~ 98 (330)
T PF00405_consen 33 RATSREDCMRRIKKGE-ADAVTLDGGDV-YIAGLRKYNLKPIAAEVYGSEEEPEASYYAVAVVKKSSN 98 (330)
T ss_dssp EESSHHHHHHHHHTTS-SSBEEEEHHHH-HHHHSTTTTEEEEEEEEESSSSSEESEEEEEEEEETTSS
T ss_pred eCCCHHHHHHHHhhcc-CCEEEeCchhh-hhhhccccCCEEeeeeeccccccccceeEEEEEEecCCC
Confidence 4568899999999976 99999988664 66663348885 4555433 3458877766 443
No 27
>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=82.83 E-value=4.8 Score=25.43 Aligned_cols=58 Identities=7% Similarity=0.031 Sum_probs=40.7
Q ss_pred ccCHHHHHHHHhhcCCceEEEeccchhHHHHhhCCCCeEEeCCcCCccceEEEecCCCCC
Q psy2802 14 VSSETEGVNKVRSSHGKYAFLIESPRNDYENARQPCDTMKVGNNLDVKGFGVATPIGSPL 73 (74)
Q Consensus 14 v~~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~c~L~~vg~~f~~~~ygia~~k~Spl 73 (74)
..+..+.++.+.+|+ .|..+......-....+. -+++.++........++..+++|.+
T Consensus 28 ~~~~~~~~~~l~~G~-~D~~~~~~~~~~~~~~~g-~~~~~i~~~~~~~~~~l~~~~~s~i 85 (216)
T PF09084_consen 28 FGGGGDVLEALASGK-ADIAVAGPDAVLFARAKG-ADIKIIAASYQSSPNALVVRKDSGI 85 (216)
T ss_dssp ESSHHHHHHHHHTTS-HSEEEEECHHHHHHHHTT-STEEEEEEEEEECCEEEEEETTTS-
T ss_pred ecChhHHHHHHhcCC-ceEEeccchHHHHHHhcC-CeeEEEEEecCCCceEEEEeccCCC
Confidence 456678899998875 887666555433333332 7888888877667788999998865
No 28
>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=82.54 E-value=2 Score=30.32 Aligned_cols=57 Identities=12% Similarity=0.134 Sum_probs=45.5
Q ss_pred cccCHHHHHHHHhhcCCceEEEeccchhHHHHhhCCCCeEEeCCcCCccceEEEecCCC
Q psy2802 13 FVSSETEGVNKVRSSHGKYAFLIESPRNDYENARQPCDTMKVGNNLDVKGFGVATPIGS 71 (74)
Q Consensus 13 ~v~~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~c~L~~vg~~f~~~~ygia~~k~S 71 (74)
.-.+..+|++.+.+..+.+.+|.|.....+.+.++ +++.++... .+.|.|..+|-|.
T Consensus 112 V~~dR~~~~~~~~~~~~~dviilDDGfQh~~L~rD-l~Ivl~D~~-~~~gng~lLPaG~ 168 (326)
T PF02606_consen 112 VGPDRVAAARAALKEFPADVIILDDGFQHRRLKRD-LDIVLVDAD-RPFGNGFLLPAGP 168 (326)
T ss_pred EeCcHHHHHHHHHHHCCCCEEEEcCCcccccccCC-cEEEEEeCC-CCCcCCccCCCCc
Confidence 34566788888888545899999999999999988 998888763 5667788888773
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=82.28 E-value=4.1 Score=27.24 Aligned_cols=54 Identities=11% Similarity=-0.054 Sum_probs=37.2
Q ss_pred CHHHHHHHHhhcCCceEEEeccchhHHHHhhC-C---CCeEEeCCcCCccceEEEecCC
Q psy2802 16 SETEGVNKVRSSHGKYAFLIESPRNDYENARQ-P---CDTMKVGNNLDVKGFGVATPIG 70 (74)
Q Consensus 16 ~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~-~---c~L~~vg~~f~~~~ygia~~k~ 70 (74)
+..+.+..+..|+ +||.+.+.+.+..++++. + -++.++...-...+.+++++++
T Consensus 176 ~~~~~~~al~~G~-vDa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 233 (288)
T TIGR03431 176 SHEAAILAVANGT-VDAATTNDENLDRMIRKGQPDAMEDLRIIWKSPLIPNGPIVYRKD 233 (288)
T ss_pred chHHHHHHHHcCC-CCeEeccHHHHHHHHHcCCCCchhheEEEEEcCCCCCCcEEEeCC
Confidence 5788999999976 999999988888777642 2 2355554321223467888887
No 30
>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=82.14 E-value=2.1 Score=30.09 Aligned_cols=57 Identities=11% Similarity=0.155 Sum_probs=43.2
Q ss_pred cccCHHHHHHHHhhcCCceEEEeccchhHHHHhhCCCCeEEeCCcCCccceEEEecCCC
Q psy2802 13 FVSSETEGVNKVRSSHGKYAFLIESPRNDYENARQPCDTMKVGNNLDVKGFGVATPIGS 71 (74)
Q Consensus 13 ~v~~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~c~L~~vg~~f~~~~ygia~~k~S 71 (74)
.-++..++.+.+.+..+.+.+|.|.....|.++++ .++.++... .+.+.|..+|.|.
T Consensus 105 V~~dR~~a~~~~~~~~~~dviilDDGfQh~~l~rD-~~IvlvD~~-~~fgng~lLPaGp 161 (311)
T TIGR00682 105 ASKDRKDAILLILEQLDPDVIILDDGLQHRKLHRD-VEIVVVDGQ-RPFGNGFLLPAGP 161 (311)
T ss_pred EeChHHHHHHHHHhcCCCCEEEECCCCcCccccCC-eEEEEECCC-CCCCCCcccCCcC
Confidence 34556678887765435899999999999988888 888888654 4566788888763
No 31
>COG1663 LpxK Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]
Probab=81.05 E-value=3.1 Score=29.80 Aligned_cols=60 Identities=13% Similarity=0.211 Sum_probs=47.9
Q ss_pred cCcccccCHHHHHHHHhhc-CCceEEEeccchhHHHHhhCCCCeEEeCCcCCccceEEEecCC
Q psy2802 9 KDKVFVSSETEGVNKVRSS-HGKYAFLIESPRNDYENARQPCDTMKVGNNLDVKGFGVATPIG 70 (74)
Q Consensus 9 ~~~~~v~~~~egv~~~~~~-~g~~A~i~d~~~l~y~~~~~~c~L~~vg~~f~~~~ygia~~k~ 70 (74)
-+....++..+|++.+.+. .|.+.+|.|.-...|.++++ -+|.++... ...|-|+.+|.|
T Consensus 120 ~pv~v~~~R~~~~~~l~~~~~~~diIi~DDG~Qh~rL~rD-~eIvvvd~~-r~fGng~~lPaG 180 (336)
T COG1663 120 APVAVSPDRKDAAKALLAAHLGCDIIVLDDGLQHYRLHRD-FEIVVVDGQ-RGFGNGFLLPAG 180 (336)
T ss_pred CcEEEehhHHHHHHHHHhhCCCCCEEEEcCcchhhHhhcc-eeEEEEecc-ccCCCcccccCC
Confidence 4556778889999999883 35999999999999999987 667777655 556778888887
No 32
>PRK01906 tetraacyldisaccharide 4'-kinase; Provisional
Probab=79.79 E-value=3.2 Score=29.53 Aligned_cols=56 Identities=14% Similarity=0.263 Sum_probs=43.2
Q ss_pred cccCHHHHHHHHhh-cCCceEEEeccchhHHHHhhCCCCeEEeCCcCCccceEEEecCCC
Q psy2802 13 FVSSETEGVNKVRS-SHGKYAFLIESPRNDYENARQPCDTMKVGNNLDVKGFGVATPIGS 71 (74)
Q Consensus 13 ~v~~~~egv~~~~~-~~g~~A~i~d~~~l~y~~~~~~c~L~~vg~~f~~~~ygia~~k~S 71 (74)
.-++..+|.+++.+ ..+.|.+|.|.....|.++++ .++.++.. ...|.|..+|.|.
T Consensus 132 V~~dR~~aa~~l~~~~~~~dviIlDDGfQH~~L~RD-leIvl~D~--~~~Gng~lLPaGp 188 (338)
T PRK01906 132 VCPDRVAAAQALLAAHPGVDVIVSDDGLQHYRLARD-VEIVVFDH--RLGGNGFLLPAGP 188 (338)
T ss_pred EeCcHHHHHHHHHHhCCCCCEEEECCCCccchhcCC-cEEEEEcC--CCCCCCcccCCcC
Confidence 34566677877754 235899999999999999988 88888875 4458889898873
No 33
>PRK00652 lpxK tetraacyldisaccharide 4'-kinase; Reviewed
Probab=77.59 E-value=3.2 Score=29.36 Aligned_cols=56 Identities=18% Similarity=0.309 Sum_probs=42.6
Q ss_pred ccCHHHHHHHHhhcCCceEEEeccchhHHHHhhCCCCeEEeCCcCCccceEEEecCCC
Q psy2802 14 VSSETEGVNKVRSSHGKYAFLIESPRNDYENARQPCDTMKVGNNLDVKGFGVATPIGS 71 (74)
Q Consensus 14 v~~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~c~L~~vg~~f~~~~ygia~~k~S 71 (74)
-++..++.+.+.+.-+.+.+|.|.....+.++++ +++.++... .+.+.|..+|.|.
T Consensus 127 ~~dR~~~~~~~~~~~~~dviilDDGfQh~~l~rd-l~Ivl~d~~-~~fgng~~LPaG~ 182 (325)
T PRK00652 127 SPDRVAAARALLAAHGADIIILDDGLQHYRLARD-IEIVVVDGQ-RGFGNGFLLPAGP 182 (325)
T ss_pred cCcHHHHHHHHHhcCCCCEEEEcCCccCcccCCC-eEEEEECCC-CCCCCCccCCCcC
Confidence 3467778888876435899999999988888888 888887653 4566678888773
No 34
>smart00094 TR_FER Transferrin.
Probab=69.84 E-value=16 Score=25.91 Aligned_cols=59 Identities=22% Similarity=0.325 Sum_probs=37.5
Q ss_pred ccccCHHHHHHHHhhcCCceEEEeccchhHHHHhhCCCCeEEe-CCcCC------ccceEEEec-CCCCC
Q psy2802 12 VFVSSETEGVNKVRSSHGKYAFLIESPRNDYENARQPCDTMKV-GNNLD------VKGFGVATP-IGSPL 73 (74)
Q Consensus 12 ~~v~~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~c~L~~v-g~~f~------~~~ygia~~-k~Spl 73 (74)
+...+..+.++++++|+ +|+.+.|... -|.+.+ ..+|..+ .+... ...|++|+- |+|+.
T Consensus 32 v~~~s~~~Ci~~I~~g~-AD~a~ldg~~-~y~A~~-~~~l~pi~~E~~~~~~~~~~~Y~aVaVVkk~S~i 98 (332)
T smart00094 32 VSASSTEECIKAIQKGE-ADAVTLDGGD-VYTAGK-PYNLVPVFAENYGSEEEPETGYYAVAVVKKGSAI 98 (332)
T ss_pred EEcCCHHHHHHHHHCCC-CCEEEECcHH-HHhhcc-cCCceEEEEEeeccCCCCCceeEEEEEEECCCCC
Confidence 45677899999999976 9999998874 354543 2334332 22211 257886665 57763
No 35
>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=61.86 E-value=32 Score=23.54 Aligned_cols=58 Identities=12% Similarity=-0.042 Sum_probs=30.4
Q ss_pred ccccCHHHHHHHHhhcCCceEEE-eccchhHHHHhhCCCCeEEe--CCcCCccceEEEecCCCC
Q psy2802 12 VFVSSETEGVNKVRSSHGKYAFL-IESPRNDYENARQPCDTMKV--GNNLDVKGFGVATPIGSP 72 (74)
Q Consensus 12 ~~v~~~~egv~~~~~~~g~~A~i-~d~~~l~y~~~~~~c~L~~v--g~~f~~~~ygia~~k~Sp 72 (74)
...++..+..+.+.+|+ ..+.+ ++...+... .+. -.+..+ .+.......+++++||+|
T Consensus 198 ~~~~s~~~~~~~v~~Ge-~~i~~~~~~~~~~~~-~~g-~~v~~~~P~eG~~~~~~~~ai~k~a~ 258 (334)
T TIGR03261 198 VYTHSGSKPCKLAGMGE-FPIGISMAYRALKEK-KKG-APIDVVFPKEGLGWDIEATAIIKGSK 258 (334)
T ss_pred ccCCCChHHHHHHhCCC-ceEEEEecHHHHHHH-hCC-CCeEEEecCCCCeeeeeeeEEEcCCC
Confidence 34556677888888865 55444 444333222 222 233332 111122346899999986
No 36
>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=60.08 E-value=29 Score=22.49 Aligned_cols=56 Identities=20% Similarity=0.126 Sum_probs=33.8
Q ss_pred cCHHHHHHHHhhcCCceEEEecc-chhHHHHhhCCCCeEEeCCcCCccceEEEecCCCCC
Q psy2802 15 SSETEGVNKVRSSHGKYAFLIES-PRNDYENARQPCDTMKVGNNLDVKGFGVATPIGSPL 73 (74)
Q Consensus 15 ~~~~egv~~~~~~~g~~A~i~d~-~~l~y~~~~~~c~L~~vg~~f~~~~ygia~~k~Spl 73 (74)
.+..+.++.+.+|+ +|..+... +.+.. ..+. .++..++......+..++.++++++
T Consensus 37 ~~~~~~~~~l~~G~-~D~~~~~~~~~~~~-~~~g-~~~~~i~~~~~~~~~~~v~~~~~~i 93 (288)
T TIGR01728 37 PAGPPALEALGAGS-LDFGYIGPGPALFA-YAAG-ADIKAVGLVSDNKATAIVVIKGSPI 93 (288)
T ss_pred CCCcHHHHHHhcCC-ccccccCCcHHHHH-HhcC-CCEEEEEEecCCCceEEEECCCCCC
Confidence 35567889998875 77654433 22222 2222 5777776544435677888888765
No 37
>PRK11553 alkanesulfonate transporter substrate-binding subunit; Provisional
Probab=53.52 E-value=63 Score=21.77 Aligned_cols=57 Identities=12% Similarity=0.009 Sum_probs=33.6
Q ss_pred CHHHHHHHHhhcCCceEEEeccchhHHHHhhCCCCeEEeCC-cCCccceEEEecCCCCCC
Q psy2802 16 SETEGVNKVRSSHGKYAFLIESPRNDYENARQPCDTMKVGN-NLDVKGFGVATPIGSPLK 74 (74)
Q Consensus 16 ~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~c~L~~vg~-~f~~~~ygia~~k~Spl~ 74 (74)
+..+.++.+.+|+ +|..+......... ....-++..++. .......+++++++|+++
T Consensus 65 ~~~~~~~aL~~G~-iDia~~~~~~~~~~-~~~g~~~~~v~~~~~~~~~~~lvv~~~s~i~ 122 (314)
T PRK11553 65 AGPQMLEALNVGS-IDLGSTGDIPPIFA-QAAGADLVYVGVEPPKPKAEVILVAENSPIK 122 (314)
T ss_pred CcHHHHHHHHcCC-CCEEccCCHHHHHH-HhCCCCEEEEEEecCCCcceEEEEeCCCCCC
Confidence 4467888888875 88766543211111 112245666553 344456789999998863
No 38
>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=53.20 E-value=45 Score=21.08 Aligned_cols=65 Identities=8% Similarity=-0.010 Sum_probs=35.8
Q ss_pred hhHhhhccCcccccCHHHHHHHHhhcCCceEEE-eccchhHHHHhhCCCCeEEeCC-cCCccceEEEecCCCC
Q psy2802 2 YYFMQMHKDKVFVSSETEGVNKVRSSHGKYAFL-IESPRNDYENARQPCDTMKVGN-NLDVKGFGVATPIGSP 72 (74)
Q Consensus 2 w~~m~~~~~~~~v~~~~egv~~~~~~~g~~A~i-~d~~~l~y~~~~~~c~L~~vg~-~f~~~~ygia~~k~Sp 72 (74)
|+.++.+- ....+..+.++.+.+|+ .++.+ +.+..... +.......+.. ......|++++.++++
T Consensus 125 ~~~l~~n~--~~~~~~~~~~~~~~~Ge-~~~~~~~~~~~~~~---~~~~~~~~~P~~~~~~~~~~~ai~k~a~ 191 (216)
T TIGR01256 125 WETLKKKL--VYGEDVRQALQFVETGN-APAGIVALSDVIPS---KKVGSVATFPEDLYKPIRYPAVIVKGGK 191 (216)
T ss_pred hhhhhhhe--eecCcHHHHHHHHHcCC-CCEEeeehhhhccc---CCccEEEEeCccccCCccccEEEEECCC
Confidence 55555432 23456678888888875 55555 44333221 12133333333 2344568999999875
No 39
>PF12974 Phosphonate-bd: ABC transporter, phosphonate, periplasmic substrate-binding protein ; PDB: 3N5L_B 3QUJ_C 3P7I_A 3QK6_A 3S4U_A.
Probab=50.21 E-value=25 Score=22.80 Aligned_cols=57 Identities=16% Similarity=0.097 Sum_probs=38.4
Q ss_pred ccccCHHHHHHHHhhcCCceEEEeccchhHHHHhhCC---CCeEEeCCcCCccceEEEecC
Q psy2802 12 VFVSSETEGVNKVRSSHGKYAFLIESPRNDYENARQP---CDTMKVGNNLDVKGFGVATPI 69 (74)
Q Consensus 12 ~~v~~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~---c~L~~vg~~f~~~~ygia~~k 69 (74)
+++.+....++.|.+|+ .||.+.....++-+...+| .++.++...-.-.++.|+..+
T Consensus 141 ~~~~~~~~~~~~l~~G~-~Da~~~~~~~~~~~~~~~~~~~~~~rvl~~s~~~p~~~~~~~~ 200 (243)
T PF12974_consen 141 VFVGSHDAVLEALLNGK-ADAAAIPSDAFERLEAEGPDIPSQLRVLWTSPPYPNWPLVASP 200 (243)
T ss_dssp EEEE-HHHHHHHHHTTS-SSEEEEEHHHHHHHHHH-HHHHTTEEEEEEEEEEE--EEEEET
T ss_pred EEeCCHHHHHHHHHcCC-ccEEEEechhHHHHHHccCcccccEEEEEEeCCCCCcEEEEeC
Confidence 36778889999999976 8998888888887776642 678888764333345555544
No 40
>PF03401 TctC: Tripartite tricarboxylate transporter family receptor; InterPro: IPR005064 Bordetella pertussis, the causative agent of human whooping cough (pertussis), is an obligate human pathogen with diverse high-affinity transport systems for the assimilation of iron, a biometal that is essential for growth []. Periplasmic binding proteins of a new family, particularly well represented in this organism (and more generally in beta-proteobacteria), have been called Bug receptors []. They adopt a characteristic Venus flytrap fold with two globular domains bisected by a ligand-binding cleft. The family is specific for carboxylated solutes, with a characteristic mode of binding involving two highly conserved beta strand-beta turn-alpha helix motifs originating from each domain. These two motifs form hydrogen bonds with a carboxylate group of the ligand, both directly and via conserved water molecules, and have thus been termed the carboxylate pincers. Domain 1 recognises the ligand and the carboxylate group serves as an initial anchoring point. Domain 2 discriminates between productively and non-productively bound ligands as proper interactions with this domain is needed for the of the closed conformation []. BugE has a glutamate bound ligand. No charged residues are involved in glutamate binding by BugE, unlike what has been described for all glutamate receptors reported so far. The Bug architecture is highly conserved despite limited sequence identity [].; GO: 0030288 outer membrane-bounded periplasmic space; PDB: 2QPQ_C 2DVZ_A 2F5X_A.
Probab=50.21 E-value=71 Score=21.63 Aligned_cols=34 Identities=12% Similarity=-0.083 Sum_probs=23.4
Q ss_pred ccccCHHHHHHHHhhcCCceEEEeccchhHHHHhh
Q psy2802 12 VFVSSETEGVNKVRSSHGKYAFLIESPRNDYENAR 46 (74)
Q Consensus 12 ~~v~~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~ 46 (74)
+.+++..+++..+..|. +|+.+.......-+++.
T Consensus 136 Vpy~G~~~~~~allgG~-vd~~~~~~~~~~~~~~~ 169 (274)
T PF03401_consen 136 VPYDGGAEALTALLGGH-VDAAFGSPGEALPYVEA 169 (274)
T ss_dssp EE-SSHHHHHHHHHTTS-SSEEEEEHHHHHHHHHT
T ss_pred EEeCCccHHHHHHhCCe-eeEEeecHHHHHHHHhC
Confidence 45777889999999875 89888765544444443
No 41
>PRK11553 alkanesulfonate transporter substrate-binding subunit; Provisional
Probab=49.67 E-value=78 Score=21.31 Aligned_cols=46 Identities=15% Similarity=0.197 Sum_probs=30.2
Q ss_pred CHHHHHHHHhhcCCceEEEeccchhHHHHhhCCCCeEEeCCcCCccc
Q psy2802 16 SETEGVNKVRSSHGKYAFLIESPRNDYENARQPCDTMKVGNNLDVKG 62 (74)
Q Consensus 16 ~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~c~L~~vg~~f~~~~ 62 (74)
+..+.+..+.+|+ +||++...|.......+..-.+...+..+...+
T Consensus 164 ~~~~~~~al~~G~-vDa~~~~ep~~~~~~~~~~~~~~~~~~~~~~~~ 209 (314)
T PRK11553 164 TPADARAAFQQGN-VDAWAIWDPYYSAALLQGGVRVLKDGTDLNQTG 209 (314)
T ss_pred ChHHHHHHHHcCC-CCEEEEcCcHHHHHHhcCCcEEeecCcccCcCc
Confidence 5668889999876 999988888877665554333444444443333
No 42
>PRK00489 hisG ATP phosphoribosyltransferase; Reviewed
Probab=49.60 E-value=29 Score=23.64 Aligned_cols=50 Identities=12% Similarity=-0.144 Sum_probs=34.3
Q ss_pred cccCHHHHHHHHhhcCCceEEEeccchhHHHHhhCCCCeEEeCCcCCccceEEEecC
Q psy2802 13 FVSSETEGVNKVRSSHGKYAFLIESPRNDYENARQPCDTMKVGNNLDVKGFGVATPI 69 (74)
Q Consensus 13 ~v~~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~c~L~~vg~~f~~~~ygia~~k 69 (74)
...+..|+ .+..| ..||++.+.++...+.++ .|.++ +.+.....+++.++
T Consensus 139 ~~~gs~ea--a~~~G-~aDaivd~~~~~~~l~~~---~L~~v-~~~~~~~~~li~~k 188 (287)
T PRK00489 139 ELSGAVEV--APRLG-LADAIVDVVSTGTTLRAN---GLKIV-EVILRSEAVLIARK 188 (287)
T ss_pred ECCCchhh--hhcCC-cccEEEeeHHHHHHHHHC---CCEEE-EeeeeeeEEEEEcc
Confidence 34445554 34444 389998878877776653 47777 56677789999988
No 43
>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=42.21 E-value=12 Score=24.80 Aligned_cols=47 Identities=4% Similarity=0.147 Sum_probs=27.4
Q ss_pred ccCHHHHHHHHhhcCCceEEEeccchhHHHHhhCCCCeEEeCCcCCccceEEEe
Q psy2802 14 VSSETEGVNKVRSSHGKYAFLIESPRNDYENARQPCDTMKVGNNLDVKGFGVAT 67 (74)
Q Consensus 14 v~~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~c~L~~vg~~f~~~~ygia~ 67 (74)
.++.+++++.+++|+ -.+|.|..--+ +..+|....+...+....|..
T Consensus 2 ~~~ie~ai~al~~G~--~Viv~Dd~~RE-----nEgdlv~aAe~~T~e~v~fm~ 48 (199)
T TIGR00506 2 FERVEEALEALKKGE--IVLVYDDEDRE-----NEGDLIVAAEFITPEQIAFMR 48 (199)
T ss_pred cchHHHHHHHHHCCC--eEEEEeCCCCC-----ccEeEEEEhhhCCHHHHHHHH
Confidence 356899999999865 77777764311 114555555444444433333
No 44
>cd03829 Sina Seven in absentia (Sina) protein family, C-terminal substrate binding domain; composed of the Drosophila Sina protein, the mammalian Sina homolog (Siah), the plant protein SINAT5, and similar proteins. Sina, Siah and SINAT5 are RING-containing proteins that function as E3 ubiquitin ligases, acting either as single proteins or as a part of multiprotein complexes. Sina is expressed in many cells in the developing eye but is essential specifically for R7 photoreceptor cell development. Sina cooperates with Phyllopod (Phyl), Ebi and the E2 ubiquitin-conjugating enzyme Ubcd1 to catalyze the ubiquitination and subsequent degradation of Tramtrack (Ttk88); Ttk88 is a transcriptional repressor that blocks photoreceptor differentiation. Similarly, the mammalian homologue Siah1 cooperates with SIP (Siah-interacting protein), Ebi and the adaptor protein Skp1, to target beta-catenin for ubiquitination and degradation via a p53-dependent mechanism. SINAT5 targets NAC1 for ubiquitin-medi
Probab=39.43 E-value=44 Score=20.84 Aligned_cols=34 Identities=12% Similarity=0.061 Sum_probs=28.0
Q ss_pred cccCHHHHHHHHhhcCCceEEEeccchhHHHHhhCC
Q psy2802 13 FVSSETEGVNKVRSSHGKYAFLIESPRNDYENARQP 48 (74)
Q Consensus 13 ~v~~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~ 48 (74)
.-.|+.|++..++.+. |.+|.|...+.+....+.
T Consensus 85 ~PRSIrds~~~~~~~~--D~Lii~~~~A~~Fs~~g~ 118 (127)
T cd03829 85 TPRSIREGHASVIDNS--DCLVFDTSIAQLFSENGN 118 (127)
T ss_pred CCccHHHhhHHHhhcC--cceEEechHhhhccCCCc
Confidence 3467899999999865 999999999988876543
No 45
>PRK05773 3,4-dihydroxy-2-butanone 4-phosphate synthase; Validated
Probab=38.53 E-value=16 Score=24.66 Aligned_cols=43 Identities=12% Similarity=0.059 Sum_probs=27.5
Q ss_pred CHHHHHHHHhhcCCceEEEeccchhHHHHhhCC-CCeEEeCCcCCccceEEE
Q psy2802 16 SETEGVNKVRSSHGKYAFLIESPRNDYENARQP-CDTMKVGNNLDVKGFGVA 66 (74)
Q Consensus 16 ~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~-c~L~~vg~~f~~~~ygia 66 (74)
+.+++++.+++|+ ..+|+|..- ++. .+|....+...+....|.
T Consensus 2 ~ie~ai~al~~G~--~Viv~Dde~------REnEgDlv~aAe~vT~e~i~fm 45 (219)
T PRK05773 2 DFEEARKALESGI--PVLIYDFDG------REEEVDMVFYAGAVTWKSIYTL 45 (219)
T ss_pred CHHHHHHHHHCCC--eEEEEECCC------CCccccEEEEhhhCCHHHHHHH
Confidence 5789999999865 888888643 222 666665555444443333
No 46
>PF03466 LysR_substrate: LysR substrate binding domain; InterPro: IPR005119 The structure of this domain is known and is similar to the periplasmic binding proteins []. This domain is found in members of the LysR family of prokaryotic transcriptional regulatory proteins IPR000847 from INTERPRO which share sequence similarities over approximately 280 residues including a putative helix-turn-helix DNA-binding motif at their N terminus.; PDB: 3ONM_B 3FZJ_J 3FXR_B 3N6T_A 3FXQ_A 3FXU_A 3N6U_A 2QSX_B 3HO7_B 1IZ1_B ....
Probab=36.17 E-value=95 Score=18.40 Aligned_cols=50 Identities=14% Similarity=0.088 Sum_probs=32.2
Q ss_pred ccCHHHHHHHHhhcCCceEEEeccchhHHHHhhCCCCeEEeCCcCCccceEEEecCCCCC
Q psy2802 14 VSSETEGVNKVRSSHGKYAFLIESPRNDYENARQPCDTMKVGNNLDVKGFGVATPIGSPL 73 (74)
Q Consensus 14 v~~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~c~L~~vg~~f~~~~ygia~~k~Spl 73 (74)
..+..+.++.+++|. .|..|.-.+. .. .++.. ..+....+.+..+++.||
T Consensus 41 ~~~~~~~~~~l~~g~-~Dl~i~~~~~------~~-~~~~~--~~l~~~~~~~~~~~~~pl 90 (209)
T PF03466_consen 41 EGDSDELIEALRSGE-LDLAITFGPP------PP-PGLES--EPLGEEPLVLVVSPDHPL 90 (209)
T ss_dssp EESHHHHHHHHHTTS-SSEEEESSSS------SS-TTEEE--EEEEEEEEEEEEETTSGG
T ss_pred eccchhhhHHHhccc-ccEEEEEeec------cc-ccccc--ccccceeeeeeeeccccc
Confidence 455678888898865 8887776655 11 22222 234566788888888765
No 47
>COG0077 PheA Prephenate dehydratase [Amino acid transport and metabolism]
Probab=35.71 E-value=97 Score=21.72 Aligned_cols=58 Identities=16% Similarity=0.093 Sum_probs=42.3
Q ss_pred CcccccCHHHHHHHHhhcCCceEEEe-----cc---chhHHHHhhCCCCeEEeCCcCCccceEEEecCC
Q psy2802 10 DKVFVSSETEGVNKVRSSHGKYAFLI-----ES---PRNDYENARQPCDTMKVGNNLDVKGFGVATPIG 70 (74)
Q Consensus 10 ~~~~v~~~~egv~~~~~~~g~~A~i~-----d~---~~l~y~~~~~~c~L~~vg~~f~~~~ygia~~k~ 70 (74)
+....++..|.+++|.+|.-.+|+|- +. .+++.+.. -+|.++|+.+-+....++..++
T Consensus 28 ~~~p~~ti~evf~ave~g~aD~gVVPIENS~eG~V~~tlDlL~~---~~l~IvgE~~lpI~h~L~~~~~ 93 (279)
T COG0077 28 ELLPCSTIEDVFKAVENGEADYGVVPIENSIEGSVNETLDLLAE---TDLQIVGEIVLPIHHCLLVKGG 93 (279)
T ss_pred eeccCCCHHHHHHHHHcCCCceEEEEeeecCCcchHHHHHhhcc---CCcEEEEEEEEEEEEEEEecCC
Confidence 34678999999999999753577762 11 24555543 5699999999999998887643
No 48
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=35.37 E-value=34 Score=23.38 Aligned_cols=28 Identities=18% Similarity=0.283 Sum_probs=23.3
Q ss_pred cccCHHHHHHHHhhcCCceEEEeccchh
Q psy2802 13 FVSSETEGVNKVRSSHGKYAFLIESPRN 40 (74)
Q Consensus 13 ~v~~~~egv~~~~~~~g~~A~i~d~~~l 40 (74)
..++.+|+++++|+.=|.||+|..+-..
T Consensus 7 ~a~~~~eal~~ik~elG~dAvIls~r~v 34 (282)
T TIGR03499 7 TAPTMREALAKVKEELGPDAVILSTRKV 34 (282)
T ss_pred ecCCHHHHHHHHHHHHCCCcEEEEeeEe
Confidence 5789999999999976789999876544
No 49
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=35.23 E-value=35 Score=24.75 Aligned_cols=28 Identities=14% Similarity=0.124 Sum_probs=23.3
Q ss_pred ccCHHHHHHHHhhcCCceEEEeccchhH
Q psy2802 14 VSSETEGVNKVRSSHGKYAFLIESPRND 41 (74)
Q Consensus 14 v~~~~egv~~~~~~~g~~A~i~d~~~l~ 41 (74)
.++.+|+++++|..=|.||+|..+-.++
T Consensus 9 a~~~~EAm~~ik~elG~dAvILs~r~v~ 36 (388)
T PRK12723 9 GPTYNEVIETIKKKYGKNARVMTYKTIP 36 (388)
T ss_pred cCCHHHHHHHHHHHHCCCeEEEEeeEec
Confidence 5599999999999877899998776543
No 50
>cd05466 PBP2_LTTR_substrate The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily. This model and hierarchy represent the the substrate-binding domain of the LysR-type transcriptional regulators that form 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 bin
Probab=33.02 E-value=97 Score=17.58 Aligned_cols=48 Identities=13% Similarity=0.101 Sum_probs=28.6
Q ss_pred CHHHHHHHHhhcCCceEEEeccchhHHHHhhCCCCeEEeCCcCCccceEEEecCCCCC
Q psy2802 16 SETEGVNKVRSSHGKYAFLIESPRNDYENARQPCDTMKVGNNLDVKGFGVATPIGSPL 73 (74)
Q Consensus 16 ~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~c~L~~vg~~f~~~~ygia~~k~Spl 73 (74)
+..+.++.+.+|+ .|..|...+. . . -++ ....+....+.+..+++.|+
T Consensus 37 ~~~~~~~~l~~g~-~D~~i~~~~~-----~-~-~~~--~~~~l~~~~~~~~~~~~~~~ 84 (197)
T cd05466 37 GSSELLEALLEGE-LDLAIVALPV-----D-D-PGL--ESEPLFEEPLVLVVPPDHPL 84 (197)
T ss_pred ChHHHHHHHHcCC-ceEEEEcCCC-----C-C-Ccc--eEeeeeccceEEEecCCCCc
Confidence 4557788888865 8888865443 1 1 111 12234555677777777764
No 51
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=32.74 E-value=45 Score=24.35 Aligned_cols=29 Identities=10% Similarity=0.248 Sum_probs=24.4
Q ss_pred ccccCHHHHHHHHhhcCCceEEEeccchh
Q psy2802 12 VFVSSETEGVNKVRSSHGKYAFLIESPRN 40 (74)
Q Consensus 12 ~~v~~~~egv~~~~~~~g~~A~i~d~~~l 40 (74)
.+.++..|++.++|..=|.||+|..+-.+
T Consensus 6 f~a~~~~eAm~~vk~eLG~dAVILs~r~v 34 (424)
T PRK05703 6 FTAKDMREALKQIKEELGADAVILSNKKV 34 (424)
T ss_pred EecCCHHHHHHHHHHHhCCCeEEEeccee
Confidence 36889999999999987789999876654
No 52
>PRK00910 ribB 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional
Probab=32.40 E-value=22 Score=24.02 Aligned_cols=47 Identities=9% Similarity=0.196 Sum_probs=28.7
Q ss_pred ccCHHHHHHHHhhcCCceEEEeccchhHHHHhhCCCCeEEeCCcCCccceEEEe
Q psy2802 14 VSSETEGVNKVRSSHGKYAFLIESPRNDYENARQPCDTMKVGNNLDVKGFGVAT 67 (74)
Q Consensus 14 v~~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~c~L~~vg~~f~~~~ygia~ 67 (74)
..+.+++|+.+++|+ ..+|.|..--+ +..+|....+...+....|..
T Consensus 14 ~~~ie~ai~al~~G~--~Viv~Dde~RE-----nEgDlv~aAe~~T~e~v~fm~ 60 (218)
T PRK00910 14 ITRVENALQALREGR--GVLLLDDEDRE-----NEGDIIYSVEHLTNAQMALMI 60 (218)
T ss_pred cccHHHHHHHHHCCC--eEEEEeCCCCC-----ccccEEEEhhhCCHHHHHHHH
Confidence 467999999999865 77887765311 115555555544444433333
No 53
>PRK01792 ribB 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional
Probab=32.39 E-value=23 Score=23.87 Aligned_cols=47 Identities=6% Similarity=0.132 Sum_probs=28.2
Q ss_pred ccCHHHHHHHHhhcCCceEEEeccchhHHHHhhCC-CCeEEeCCcCCccceEEEec
Q psy2802 14 VSSETEGVNKVRSSHGKYAFLIESPRNDYENARQP-CDTMKVGNNLDVKGFGVATP 68 (74)
Q Consensus 14 v~~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~-c~L~~vg~~f~~~~ygia~~ 68 (74)
..+.+++++.+++|+ ..+|.|..- ++. .+|....+...+....|..+
T Consensus 13 ~~~i~~ai~al~~G~--~Viv~Dde~------REnEgDlv~aAe~~t~e~i~fm~~ 60 (214)
T PRK01792 13 EERVINAINAFKQGN--GVLVLDDED------RENEGDLIFPAETITPEQMAKLIR 60 (214)
T ss_pred cccHHHHHHHHHCCC--eEEEEeCCC------CCccccEEEEhhhCCHHHHHHHHH
Confidence 467899999999865 777777542 122 55555555444444333333
No 54
>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=31.61 E-value=83 Score=20.73 Aligned_cols=60 Identities=13% Similarity=0.073 Sum_probs=40.7
Q ss_pred cccCHHHHHHHHhhcCCceEEEeccchhHHHHhhCCCC-------eEEeCCcCCccceEEEecCCCCC
Q psy2802 13 FVSSETEGVNKVRSSHGKYAFLIESPRNDYENARQPCD-------TMKVGNNLDVKGFGVATPIGSPL 73 (74)
Q Consensus 13 ~v~~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~c~-------L~~vg~~f~~~~ygia~~k~Spl 73 (74)
......+|++.+.+|. .|..+.+.++-.-....+.|. ..+...++...+.+|+..+..|+
T Consensus 43 ~~~gS~~g~~~l~~g~-~di~~~sr~l~~~e~~~~~~~~~~~~~~~~~~~~~va~d~i~iv~n~~np~ 109 (281)
T PF12849_consen 43 ESSGSGAGIQALINGK-VDIAISSRPLTAAEIASEGYNAKGQKWGGGLVQIPVARDAIVIVVNKDNPL 109 (281)
T ss_dssp EEE-HHHHHHHHHTTS-SSEEEESSHHHHHHHHHHTCCCCCHHHHCTEEEEEEEEEEEEEEEETTTTT
T ss_pred EeCCCHHHHHHHHhCC-CEEEEeCCCCcHHHHhHhhhhhcccccccccEEEEEEEeeEEEEEcCCCcc
Confidence 3456789999999976 888888888877655221122 22333466777888888887765
No 55
>TIGR01276 thiB thiamine ABC transporter, periplasmic binding protein. This model finds the thiamine (and thiamine pyrophosphate) ABC transporter periplasmic binding protein ThiB in proteobacteria. Completed genomes having this protein (E. coli, Vibrio cholera, Haemophilus influenzae) also have the permease ThiP, described by TIGRFAMs equivalog model TIGR01253.
Probab=31.38 E-value=1.6e+02 Score=19.68 Aligned_cols=69 Identities=6% Similarity=-0.083 Sum_probs=35.2
Q ss_pred hhHhhhccCcccccCHHHHHHHHhhcCCceEEE-eccchhHHHH-hhC-CCCeEEeCCcCCccceEEEecCCCC
Q psy2802 2 YYFMQMHKDKVFVSSETEGVNKVRSSHGKYAFL-IESPRNDYEN-ARQ-PCDTMKVGNNLDVKGFGVATPIGSP 72 (74)
Q Consensus 2 w~~m~~~~~~~~v~~~~egv~~~~~~~g~~A~i-~d~~~l~y~~-~~~-~c~L~~vg~~f~~~~ygia~~k~Sp 72 (74)
|+.+.++.. ....+..+.+..+.+|+ .++.| ++...+.... .+. +..+....+......+++++++|+|
T Consensus 165 ~~~L~~~~~-~~~~~~~~~~~~~~~Ge-~~i~i~~~~~~~~~~~~~~~~~~~~~~~~eG~~~~~~~~ai~k~a~ 236 (309)
T TIGR01276 165 WQKLAKKTV-TVTKGWSEAYGLFLKGE-SDLVLSYTTSPAYHILEEKKDNYAAANFSEGHYLQVEVAARTAASK 236 (309)
T ss_pred HHHHHHcCc-eeCCChHHHHHHHHcCC-cCEEEecCCcHHHHhhcccCcccceEecCCCCEeEEEEEEEeCCCC
Confidence 556654432 23445566777888765 55554 4333221111 111 1233333333344457889999886
No 56
>TIGR03414 ABC_choline_bnd choline ABC transporter, periplasmic binding protein. Partial phylogenetic profiling (PubMed:16930487) vs. the genome property of glycine betaine biosynthesis from choline consistently reveals a member of this ABC transporter periplasmic binding protein as the best match, save for the betaine biosynthesis enzymes themselves. Genomes often carry several paralogs, one encoded together with the permease and ATP-binding components and another encoded next to a choline-sulfatase gene, suggesting that different members of this protein family interact with shared components and give some flexibility in substrate. Of two members from Sinorhizobium meliloti 1021, one designated ChoX has been shown experimentally to bind choline (though not various related compounds such as betaine) and to be required for about 60 % of choline uptake. Members of this protein have an invariant Cys residue near the N-terminus and likely are lipoproteins.
Probab=30.74 E-value=1.8e+02 Score=19.92 Aligned_cols=53 Identities=15% Similarity=0.112 Sum_probs=33.9
Q ss_pred CHHHHHHHHhhcCCceEEEec--cchhHHHHhhCC-CCeEEeCCcCCccceEEEecC
Q psy2802 16 SETEGVNKVRSSHGKYAFLIE--SPRNDYENARQP-CDTMKVGNNLDVKGFGVATPI 69 (74)
Q Consensus 16 ~~~egv~~~~~~~g~~A~i~d--~~~l~y~~~~~~-c~L~~vg~~f~~~~ygia~~k 69 (74)
+..-....+.+|+ +|++..- ...-..+.+... .++..+|.......||+++|+
T Consensus 44 ~~~~~~~al~~Gd-iD~~~e~W~p~~~~~~~~~~~~~~l~~lg~~~~~~~~g~~Vp~ 99 (290)
T TIGR03414 44 SVPVTYAGLKDGD-LDVFLGNWMPAMEPDIKPYLESGSVEVLGPNLEGAKYTLAVPT 99 (290)
T ss_pred cHHHHHHHHHcCC-ceEeccccCCcCHHHHHhhccCCeEEEecccCCCceEEEEECh
Confidence 4555677777764 8877633 222233333222 478889887777789999997
No 57
>PF14400 Transglut_i_TM: Inactive transglutaminase fused to 7 transmembrane helices
Probab=30.22 E-value=38 Score=21.91 Aligned_cols=21 Identities=14% Similarity=0.221 Sum_probs=18.3
Q ss_pred CCeEEeCCcCCccceEEEecC
Q psy2802 49 CDTMKVGNNLDVKGFGVATPI 69 (74)
Q Consensus 49 c~L~~vg~~f~~~~ygia~~k 69 (74)
-.++++.+.|...|||+.+-.
T Consensus 45 pgf~il~E~~~SpGYGls~~~ 65 (165)
T PF14400_consen 45 PGFTILDENFASPGYGLSIVD 65 (165)
T ss_pred CCeEEEccccccCCCCeEEEe
Confidence 568899999999999998755
No 58
>PF08967 DUF1884: Domain of unknown function (DUF1884); InterPro: IPR014418 This group represents an uncharacterised conserved protein.; PDB: 2PK8_A.
Probab=26.92 E-value=47 Score=19.29 Aligned_cols=15 Identities=20% Similarity=0.058 Sum_probs=11.1
Q ss_pred CceEEEeccchhHHH
Q psy2802 29 GKYAFLIESPRNDYE 43 (74)
Q Consensus 29 g~~A~i~d~~~l~y~ 43 (74)
|.||+|.|+..|-+.
T Consensus 60 g~DAVvaDSk~LG~~ 74 (85)
T PF08967_consen 60 GSDAVVADSKYLGQL 74 (85)
T ss_dssp TTEEEEE-TTTTTTS
T ss_pred CCceEEEchHHhccc
Confidence 469999999888654
No 59
>PF13379 NMT1_2: NMT1-like family; PDB: 2G29_A 3UN6_A 2I4C_A 2I49_A 2I4B_A 2I48_A 3QSL_A.
Probab=26.85 E-value=1.9e+02 Score=18.85 Aligned_cols=57 Identities=9% Similarity=0.011 Sum_probs=36.2
Q ss_pred ccccCHHHHHHHHhhcCCceEEEeccchhHHHHhhC---CCCeEEeCCcCCccceEEEecCC
Q psy2802 12 VFVSSETEGVNKVRSSHGKYAFLIESPRNDYENARQ---PCDTMKVGNNLDVKGFGVATPIG 70 (74)
Q Consensus 12 ~~v~~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~---~c~L~~vg~~f~~~~ygia~~k~ 70 (74)
....+..+.++.+..|+ +|+.....+.+....... +.++..++.. ...+.++.++++
T Consensus 40 ~~~~~g~~~~~al~~G~-iD~a~~~~~~~~~~~~g~~~~~~~~~~~~~~-~~~g~~lvv~~~ 99 (252)
T PF13379_consen 40 VQFASGADILEALAAGE-IDIAFVLAPALIAIAKGAGGPDVDIVVLAGL-SQNGNALVVRND 99 (252)
T ss_dssp EEESSHHHHHHHHHCTS-SSEEEECTHHHHHHHTTTTT----EEEEEEC-SBSSEEEEECGG
T ss_pred EEcCCHHHHHHHHHcCC-CCEEEechHHHHHHHcCCCCcccceEEeecc-CCCceEEEEcCc
Confidence 35667889999999875 766665556655554433 2567776553 566778888765
No 60
>KOG3333|consensus
Probab=26.69 E-value=23 Score=23.12 Aligned_cols=35 Identities=14% Similarity=0.148 Sum_probs=28.8
Q ss_pred cchhHHHHhhCCCCeEEeCCcCCccceEEEecCCC
Q psy2802 37 SPRNDYENARQPCDTMKVGNNLDVKGFGVATPIGS 71 (74)
Q Consensus 37 ~~~l~y~~~~~~c~L~~vg~~f~~~~ygia~~k~S 71 (74)
.++..++++++|-+|.+++....+.||-+-.|.-|
T Consensus 24 ~a~a~~f~NRNPRNlEll~~a~k~~Gy~~ekp~Rs 58 (188)
T KOG3333|consen 24 EAVAPEFTNRNPRNLELLSVARKERGYRTEKPSRS 58 (188)
T ss_pred hhhchhhhcCCcchHHHHhhhccCccceecccchh
Confidence 56788999999999999988888888888777443
No 61
>cd08563 GDPD_TtGDE_like Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in Thermoanaerobacter tengcongensis glycerophosphodiester phosphodiesterase (TtGDE, EC 3.1.4.46) and its uncharacterized homologs. Members in this family show high sequence similarity to Escherichia coli GP-GDE, which catalyzes the degradation of glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols. Despite the fact that most of GDPD family members exist as the monomer, TtGDE can function as a dimeric unit. Its catalytic mechanism is based on the general base-acid catalysis, which is similar to that of phosphoinositide-specific phospholipases C (PI-PLCs, EC 3.1.4.11). A divalent metal cation is required for the enzyme activity of TtGDE.
Probab=26.65 E-value=75 Score=20.61 Aligned_cols=9 Identities=11% Similarity=0.180 Sum_probs=4.3
Q ss_pred CceEEEecc
Q psy2802 29 GKYAFLIES 37 (74)
Q Consensus 29 g~~A~i~d~ 37 (74)
|++++|.|.
T Consensus 221 GVdgi~TD~ 229 (230)
T cd08563 221 GVDGIITNY 229 (230)
T ss_pred CCCEEeCCC
Confidence 345555544
No 62
>PF14503 YhfZ_C: YhfZ C-terminal domain; PDB: 2OZZ_B.
Probab=26.37 E-value=74 Score=21.69 Aligned_cols=22 Identities=14% Similarity=0.004 Sum_probs=15.1
Q ss_pred CHHHHHHHHhhcCCceEEEeccc
Q psy2802 16 SETEGVNKVRSSHGKYAFLIESP 38 (74)
Q Consensus 16 ~~~egv~~~~~~~g~~A~i~d~~ 38 (74)
+..+.++.+++|. +||.||...
T Consensus 145 ~Y~q~~~~l~~g~-IDA~IWN~d 166 (232)
T PF14503_consen 145 PYNQLLELLRSGE-IDAAIWNYD 166 (232)
T ss_dssp -HHHHHHHHHHTS---EEEEE--
T ss_pred cHHHHHHHHHCCC-ccEEEECCc
Confidence 4678999999976 999999776
No 63
>PRK00014 ribB 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional
Probab=26.02 E-value=32 Score=23.49 Aligned_cols=45 Identities=11% Similarity=0.195 Sum_probs=27.2
Q ss_pred cCHHHHHHHHhhcCCceEEEeccchhHHHHhhCCCCeEEeCCcCCccceEEE
Q psy2802 15 SSETEGVNKVRSSHGKYAFLIESPRNDYENARQPCDTMKVGNNLDVKGFGVA 66 (74)
Q Consensus 15 ~~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~c~L~~vg~~f~~~~ygia 66 (74)
.+.+++++.+++|+ ..+|.|..--+ +..+|....+...+....|.
T Consensus 19 ~~i~~ai~al~~Gk--~Viv~Dde~RE-----nEgDlv~aAe~~T~e~v~fm 63 (230)
T PRK00014 19 TRLERALQHLRIGR--PVILMDDFDRE-----NEADLIVAADKLTVPVMAQL 63 (230)
T ss_pred hhHHHHHHHHHCCC--eEEEEECCCCC-----ccccEEEEhhhCCHHHHHHH
Confidence 56899999999865 78888765211 11555555554444433333
No 64
>PRK10677 modA molybdate transporter periplasmic protein; Provisional
Probab=24.19 E-value=2.3e+02 Score=18.94 Aligned_cols=55 Identities=15% Similarity=0.167 Sum_probs=32.8
Q ss_pred CHHHHHHHHhhcCCceEEEeccc-hhHHHHhhCCCCeEEeC--CcCCccceEEEecCCCCC
Q psy2802 16 SETEGVNKVRSSHGKYAFLIESP-RNDYENARQPCDTMKVG--NNLDVKGFGVATPIGSPL 73 (74)
Q Consensus 16 ~~~egv~~~~~~~g~~A~i~d~~-~l~y~~~~~~c~L~~vg--~~f~~~~ygia~~k~Spl 73 (74)
+.....+++.+|...|.|+.... ..++..+.. +..-. ..|.....+|+.++++|+
T Consensus 62 ~Sg~l~~qi~~g~~~Dv~~~a~~~~~~~l~~~g---l~~~~~~~~~a~n~lvl~~~~~~~~ 119 (257)
T PRK10677 62 SSSTLARQIEQGAPADLFISADQKWMDYAVDKK---AIDTATRYTLLGNSLVVVAPKASEQ 119 (257)
T ss_pred ccHHHHHHHHcCCCCCEEEECCHHHHHHHHHCC---CCCCcchheeecCEEEEEEECCCcc
Confidence 45577788877644788998774 344444432 21111 135555677888888753
No 65
>TIGR02136 ptsS_2 phosphate binding protein. Members of this family are phosphate-binding proteins. Most are found in phosphate ABC-transporter operons, but some are found in phosphate regulatory operons. This model separates members of the current family from the phosphate ABC transporter phosphate binding protein described by TIGRFAMs model TIGR00975.
Probab=23.90 E-value=81 Score=21.30 Aligned_cols=58 Identities=14% Similarity=0.178 Sum_probs=33.1
Q ss_pred cccCHHHHHHHHhhcCCceEEEeccchhHHH---HhhCCCCeEEeCCcCCccceEEEecCCC-CC
Q psy2802 13 FVSSETEGVNKVRSSHGKYAFLIESPRNDYE---NARQPCDTMKVGNNLDVKGFGVATPIGS-PL 73 (74)
Q Consensus 13 ~v~~~~egv~~~~~~~g~~A~i~d~~~l~y~---~~~~~c~L~~vg~~f~~~~ygia~~k~S-pl 73 (74)
...+..+.++.+.+|+ .|+.+...+...-. +..+ ...+.-.++....+.+++++++ |+
T Consensus 69 ~~~~s~~l~~~L~~G~-iDlai~~~~~~~~~~~~~~~~--~~~l~~~~l~~~~l~lvv~~~h~pl 130 (287)
T TIGR02136 69 QGAGSGTGIKALINGT-VDIGNSSRPIKDEELQKDKQK--GIKLIEHKVAVDGLAVVVNKKNVPV 130 (287)
T ss_pred ccCCchHHHHHHHcCC-CchhhccCCCCHHHHHHHhhc--CCCceEEEEEEeeEEEEECCCCCcc
Confidence 3446789999999875 88866554432111 1111 1112223556667777788776 65
No 66
>PF09419 PGP_phosphatase: Mitochondrial PGP phosphatase; InterPro: IPR010021 This group of hypothetical proteins is a part of the IIIA subfamily of the haloacid dehalogenase (HAD) superfamily of hydrolases. All characterised members of this subfamily and most characterised members of the HAD superfamily are phosphatases. HAD superfamily phosphatases contain active site residues in several conserved catalytic motifs [], all of which are found conserved here. This family consists of sequences from fungi, plants, cyanobacteria, Gram-positive bacteria and Deinococcus. There is presently no characterisation of any sequence in this family.
Probab=23.71 E-value=1.8e+02 Score=18.69 Aligned_cols=42 Identities=17% Similarity=0.255 Sum_probs=25.9
Q ss_pred HHHHHHHhhcCCceEEEec--cc-----hhHHHHhh----CCCCeEEeCCcCC
Q psy2802 18 TEGVNKVRSSHGKYAFLIE--SP-----RNDYENAR----QPCDTMKVGNNLD 59 (74)
Q Consensus 18 ~egv~~~~~~~g~~A~i~d--~~-----~l~y~~~~----~~c~L~~vg~~f~ 59 (74)
.+-++++.+.-|+-++.+. .| +++|+..+ .|.++.+||+.+.
T Consensus 95 ~~~a~~~~~~lgIpvl~h~~kKP~~~~~i~~~~~~~~~~~~p~eiavIGDrl~ 147 (168)
T PF09419_consen 95 GERAEALEKALGIPVLRHRAKKPGCFREILKYFKCQKVVTSPSEIAVIGDRLF 147 (168)
T ss_pred HHHHHHHHHhhCCcEEEeCCCCCccHHHHHHHHhhccCCCCchhEEEEcchHH
Confidence 4555666554457777764 33 45666544 3577999998643
No 67
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=23.43 E-value=72 Score=23.50 Aligned_cols=28 Identities=18% Similarity=0.337 Sum_probs=22.7
Q ss_pred ccccCHHHHHHHHhhcCCceEEEeccch
Q psy2802 12 VFVSSETEGVNKVRSSHGKYAFLIESPR 39 (74)
Q Consensus 12 ~~v~~~~egv~~~~~~~g~~A~i~d~~~ 39 (74)
.+.++.+|+++++|..=|.||+|...-.
T Consensus 6 f~a~~~~~a~~~v~~~lG~dAvils~r~ 33 (420)
T PRK14721 6 FLAATSHEVLRKVKEELGPDAVILSNKQ 33 (420)
T ss_pred EecCCHHHHHHHHHHHhCCCeEEEecce
Confidence 3678999999999997678999975543
No 68
>cd08581 GDPD_like_1 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in a group of uncharacterized bacterial glycerophosphodiester phosphodiesterase and similar proteins. They show high sequence similarity to Escherichia coli glycerophosphodiester phosphodiesterase, which catalyzes the degradation of glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols.
Probab=23.42 E-value=93 Score=20.44 Aligned_cols=24 Identities=13% Similarity=0.063 Sum_probs=12.4
Q ss_pred cccCHHHHHHHHhhcCCceEEEeccc
Q psy2802 13 FVSSETEGVNKVRSSHGKYAFLIESP 38 (74)
Q Consensus 13 ~v~~~~egv~~~~~~~g~~A~i~d~~ 38 (74)
.|++..+. +++.+ .|+|++|.|.|
T Consensus 206 TVn~~~~~-~~l~~-~GVdgiiTD~P 229 (229)
T cd08581 206 EVNEPAEA-LALAA-RGVALIETDNI 229 (229)
T ss_pred EcCCHHHH-HHHHH-hCCcEEEcCCC
Confidence 44444443 33433 35777777654
No 69
>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=23.20 E-value=2.1e+02 Score=18.32 Aligned_cols=50 Identities=10% Similarity=0.012 Sum_probs=32.0
Q ss_pred ccCHHHHHHHHhhcCCceEEEeccchhHHHHhhCCCCeEEeCCcCCccceEEEecCCCCC
Q psy2802 14 VSSETEGVNKVRSSHGKYAFLIESPRNDYENARQPCDTMKVGNNLDVKGFGVATPIGSPL 73 (74)
Q Consensus 14 v~~~~egv~~~~~~~g~~A~i~d~~~l~y~~~~~~c~L~~vg~~f~~~~ygia~~k~Spl 73 (74)
..+..+.++.+++++ .|..|...+.. . .++.. ..+....++++.+++.|+
T Consensus 119 ~~~~~~~~~~l~~g~-~Dl~i~~~~~~------~-~~~~~--~~l~~~~~~lv~s~~~pl 168 (279)
T TIGR03339 119 IGNSQEVLQALQSYR-VDVAVSSEVVD------D-PRLDR--VVLGNDPLVAVVHRQHPL 168 (279)
T ss_pred ECCHHHHHHHHHcCC-CcEEEEecccC------C-CceEE--EEcCCceEEEEECCCCcc
Confidence 356778899999875 88777532211 1 23322 345667788888888775
No 70
>PF00455 DeoRC: DeoR C terminal sensor domain; InterPro: IPR014036 The deoR-type HTH domain is a DNA-binding, helix-turn-helix (HTH) domain of about 50-60 amino acids present in transcription regulators of the deoR family, involved in sugar catabolism. This family of prokaryotic regulators is named after Escherichia coli deoR, a repressor of the deo operon, which encodes nucleotide and deoxyribonucleotide catabolic enzymes. DeoR also negatively regulates the expression of nupG and tsx, a nucleoside-specific transport protein and a channel-forming protein, respectively. DeoR-like transcription repressors occur in diverse bacteria as regulators of sugar and nucleoside metabolic systems. The effector molecules for deoR-like regulators are generally phosphorylated intermediates of the relevant metabolic pathway. The DNA-binding deoR-type HTH domain occurs usually in the N-terminal part. The C-terminal part can contain an effector-binding domain and/or an oligomerization domain. DeoR occurs as an octamer, whilst glpR and agaR are tetramers. Several operators may be bound simultaneously, which could facilitate DNA looping [, ].
Probab=22.99 E-value=1.7e+02 Score=18.18 Aligned_cols=56 Identities=13% Similarity=0.209 Sum_probs=31.4
Q ss_pred CcccccCHHHHH---HHHhhcCCceEEEeccchhHHHHhhCCCCeEEeCCcCCccceEE
Q psy2802 10 DKVFVSSETEGV---NKVRSSHGKYAFLIESPRNDYENARQPCDTMKVGNNLDVKGFGV 65 (74)
Q Consensus 10 ~~~~v~~~~egv---~~~~~~~g~~A~i~d~~~l~y~~~~~~c~L~~vg~~f~~~~ygi 65 (74)
...++++-.-.. +.+....+.-.+-.+-+++.++..+..+++.++|..+.+...++
T Consensus 21 ~~Ifld~GtT~~~la~~L~~~~~ltVvTnsl~ia~~l~~~~~~~vi~~GG~~~~~~~~~ 79 (161)
T PF00455_consen 21 DTIFLDSGTTTLELAKYLPDKKNLTVVTNSLPIANELSENPNIEVILLGGEVNPKSLSF 79 (161)
T ss_pred CEEEEECchHHHHHHHHhhcCCceEEEECCHHHHHHHHhcCceEEEEeCCEEEcCCCcE
Confidence 344444443333 33433323455555555666655554489999999877765544
No 71
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=22.92 E-value=80 Score=25.25 Aligned_cols=29 Identities=21% Similarity=0.330 Sum_probs=23.8
Q ss_pred ccccCHHHHHHHHhhcCCceEEEeccchh
Q psy2802 12 VFVSSETEGVNKVRSSHGKYAFLIESPRN 40 (74)
Q Consensus 12 ~~v~~~~egv~~~~~~~g~~A~i~d~~~l 40 (74)
...+|..|+++++|..=|.||+|..+--+
T Consensus 6 f~a~~~~EAm~~VR~ELG~DAVILssrkV 34 (767)
T PRK14723 6 FVAASSREAMRQVREALGPDALVLSNRSV 34 (767)
T ss_pred EecCCHHHHHHHHHHHhCCCeEEEeccee
Confidence 36889999999999987789999866443
No 72
>PF05078 DUF679: Protein of unknown function (DUF679); InterPro: IPR007770 This family contains uncharacterised plant proteins of unknown function.
Probab=21.98 E-value=60 Score=21.19 Aligned_cols=12 Identities=42% Similarity=0.589 Sum_probs=10.3
Q ss_pred CccceEEEecCC
Q psy2802 59 DVKGFGVATPIG 70 (74)
Q Consensus 59 ~~~~ygia~~k~ 70 (74)
++..||||+++|
T Consensus 65 GkvyYG~aT~~G 76 (170)
T PF05078_consen 65 GKVYYGFATPRG 76 (170)
T ss_pred CCEEEEEEEccc
Confidence 577899999987
No 73
>PF13344 Hydrolase_6: Haloacid dehalogenase-like hydrolase; PDB: 2HO4_B 1YV9_A 1WVI_B 3EPR_A 2P27_A 2OYC_A 2CFT_A 2P69_A 2CFS_A 2CFR_A ....
Probab=21.25 E-value=1.6e+02 Score=16.82 Aligned_cols=27 Identities=15% Similarity=0.260 Sum_probs=19.4
Q ss_pred ccccCHHHHHHHHhhcCCceEEEeccc
Q psy2802 12 VFVSSETEGVNKVRSSHGKYAFLIESP 38 (74)
Q Consensus 12 ~~v~~~~egv~~~~~~~g~~A~i~d~~ 38 (74)
..++...|.++++++.+-...|++..+
T Consensus 14 ~~ipga~e~l~~L~~~g~~~~~lTNns 40 (101)
T PF13344_consen 14 EPIPGAVEALDALRERGKPVVFLTNNS 40 (101)
T ss_dssp EE-TTHHHHHHHHHHTTSEEEEEES-S
T ss_pred CcCcCHHHHHHHHHHcCCCEEEEeCCC
Confidence 357888999999988644688888776
No 74
>PF12062 HSNSD: heparan sulfate-N-deacetylase; InterPro: IPR021930 This family of proteins is are heparan sulphate N-deacetylase enzymes. This protein is found in eukaryotes. This enzyme is often found associated with PF00685 from PFAM. ; GO: 0015016 [heparan sulfate]-glucosamine N-sulfotransferase activity, 0016787 hydrolase activity
Probab=20.44 E-value=38 Score=25.61 Aligned_cols=33 Identities=18% Similarity=0.239 Sum_probs=18.8
Q ss_pred ChhHhhhccCcccccCHHHHHHHHhhcCCceEEEeccc
Q psy2802 1 MYYFMQMHKDKVFVSSETEGVNKVRSSHGKYAFLIESP 38 (74)
Q Consensus 1 ~w~~m~~~~~~~~v~~~~egv~~~~~~~g~~A~i~d~~ 38 (74)
||++|+.| .+.|...-.+.+...+ .+|.-..-|
T Consensus 362 mwsH~qpH----l~~n~s~L~~~m~lNk-~Fa~~~~ip 394 (487)
T PF12062_consen 362 MWSHMQPH----LFHNQSVLAEQMILNK-QFAKEHGIP 394 (487)
T ss_pred ccccCCCe----eeccHHHHHHHHHHHH-HhhhhccCC
Confidence 78999877 4555555444444432 465554444
No 75
>PRK11119 proX glycine betaine transporter periplasmic subunit; Provisional
Probab=20.13 E-value=3.1e+02 Score=19.32 Aligned_cols=55 Identities=9% Similarity=-0.042 Sum_probs=35.6
Q ss_pred CHHHHHHHHhhcCCceEEEecc-chh-HHHHhhCC-CCeEEeCCcCCccceEEEecCCC
Q psy2802 16 SETEGVNKVRSSHGKYAFLIES-PRN-DYENARQP-CDTMKVGNNLDVKGFGVATPIGS 71 (74)
Q Consensus 16 ~~~egv~~~~~~~g~~A~i~d~-~~l-~y~~~~~~-c~L~~vg~~f~~~~ygia~~k~S 71 (74)
+..-.++.+..|+ +|++..-. |.. .++.+-.. ..+..+|..+.....|+++|+-+
T Consensus 66 ~~~~~~~ala~Gd-iDv~~~~W~P~~~~~~~~~~~~~~v~~~g~~~~~a~~G~~VP~yv 123 (331)
T PRK11119 66 DYNVFYTSIANGD-ATFTAVNWFPLHDDMYEAAGGDKKFYREGVYVGGAAQGYLIDKKT 123 (331)
T ss_pred CcHHHHHHHHcCC-CeEehhhcccccHHHHHHhhccCcEEeccccCCCcceeeeecHHH
Confidence 4466778888765 89887443 322 33333222 45667788888888999999854
Done!