Query 041608
Match_columns 448
No_of_seqs 330 out of 2456
Neff 9.1
Searched_HMMs 46136
Date Fri Mar 29 08:55:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041608.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041608hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1054 Glutamate-gated AMPA-t 100.0 7.3E-70 1.6E-74 522.5 19.6 406 1-442 351-849 (897)
2 KOG1053 Glutamate-gated NMDA-t 100.0 4.6E-56 1E-60 443.6 26.4 393 1-435 345-853 (1258)
3 KOG4440 NMDA selective glutama 100.0 2.9E-54 6.3E-59 416.8 11.5 399 5-439 336-858 (993)
4 KOG1052 Glutamate-gated kainat 100.0 3E-50 6.6E-55 427.5 35.2 395 8-439 154-625 (656)
5 PRK09495 glnH glutamine ABC tr 99.8 1.1E-19 2.4E-24 170.4 17.5 206 91-386 23-245 (247)
6 PRK10797 glutamate and asparta 99.8 3.5E-19 7.5E-24 171.6 18.3 208 91-386 38-273 (302)
7 PRK11260 cystine transporter s 99.8 9.3E-19 2E-23 166.0 18.0 209 91-386 39-263 (266)
8 PRK15007 putative ABC transpor 99.8 1.8E-18 3.9E-23 161.7 17.3 205 91-384 19-242 (243)
9 PF00497 SBP_bac_3: Bacterial 99.8 6E-19 1.3E-23 162.0 12.6 205 95-385 1-225 (225)
10 PRK15010 ABC transporter lysin 99.8 8.2E-18 1.8E-22 159.0 18.6 210 91-385 24-255 (260)
11 PRK09959 hybrid sensory histid 99.8 3.5E-18 7.6E-23 194.4 17.2 214 82-386 290-522 (1197)
12 TIGR01096 3A0103s03R lysine-ar 99.8 1.7E-17 3.6E-22 155.7 17.6 205 92-383 23-250 (250)
13 PRK11917 bifunctional adhesin/ 99.8 1.8E-17 3.8E-22 156.4 17.3 201 91-383 36-258 (259)
14 TIGR02995 ectoine_ehuB ectoine 99.8 1.6E-17 3.4E-22 158.3 14.9 209 91-385 31-262 (275)
15 PRK15437 histidine ABC transpo 99.7 8.4E-17 1.8E-21 152.0 17.4 210 91-385 24-255 (259)
16 TIGR03870 ABC_MoxJ methanol ox 99.7 1.7E-15 3.7E-20 141.8 16.5 199 94-382 1-241 (246)
17 PRK10859 membrane-bound lytic 99.6 2.4E-15 5.2E-20 154.1 14.5 206 91-386 41-268 (482)
18 PRK09959 hybrid sensory histid 99.6 2.4E-15 5.2E-20 171.3 12.8 216 82-385 44-278 (1197)
19 TIGR02285 conserved hypothetic 99.6 3.9E-15 8.5E-20 141.3 12.0 220 91-386 16-263 (268)
20 TIGR03871 ABC_peri_MoxJ_2 quin 99.6 4E-14 8.6E-19 131.3 16.9 199 94-383 1-228 (232)
21 COG0834 HisJ ABC-type amino ac 99.5 1.5E-13 3.2E-18 130.6 15.4 210 91-386 32-266 (275)
22 cd00134 PBPb Bacterial peripla 99.5 2.3E-13 4.9E-18 123.2 14.4 201 95-383 1-218 (218)
23 smart00062 PBPb Bacterial peri 99.5 5.7E-13 1.2E-17 120.4 15.7 200 94-383 1-219 (219)
24 smart00079 PBPe Eukaryotic hom 99.4 7.1E-13 1.5E-17 111.9 11.0 110 267-384 14-133 (134)
25 PF00060 Lig_chan: Ligand-gate 99.2 5.2E-12 1.1E-16 108.6 0.4 76 191-266 1-88 (148)
26 COG4623 Predicted soluble lyti 98.9 6.4E-09 1.4E-13 98.1 10.6 203 91-386 21-249 (473)
27 PF10613 Lig_chan-Glu_bd: Liga 98.7 2.6E-09 5.6E-14 76.5 1.0 50 106-155 1-58 (65)
28 TIGR01098 3A0109s03R phosphate 98.3 8.7E-06 1.9E-10 76.4 11.6 184 91-369 30-254 (254)
29 PRK00489 hisG ATP phosphoribos 97.6 0.00016 3.4E-09 69.3 7.8 105 267-386 114-221 (287)
30 TIGR03431 PhnD phosphonate ABC 96.9 0.0084 1.8E-07 57.3 10.8 81 292-378 171-258 (288)
31 cd06377 PBP1_iGluR_NMDA_NR3 N- 95.4 0.0083 1.8E-07 59.3 2.1 42 1-44 321-364 (382)
32 cd06365 PBP1_Pheromone_recepto 93.7 0.054 1.2E-06 55.7 3.5 44 1-46 404-454 (469)
33 cd06364 PBP1_CaSR Ligand-bindi 92.7 0.12 2.7E-06 53.6 4.3 44 1-46 444-495 (510)
34 PF07885 Ion_trans_2: Ion chan 86.0 2.3 5.1E-05 31.6 5.6 39 225-263 22-62 (79)
35 PF12974 Phosphonate-bd: ABC t 85.1 1.9 4.1E-05 39.9 5.7 110 267-382 106-230 (243)
36 PRK11553 alkanesulfonate trans 82.5 7.7 0.00017 37.3 9.0 100 267-372 130-236 (314)
37 KOG1419 Voltage-gated K+ chann 82.3 1.8 4E-05 44.0 4.4 71 193-263 235-307 (654)
38 KOG1056 Glutamate-gated metabo 76.7 4 8.6E-05 44.5 5.1 48 1-50 425-477 (878)
39 COG3221 PhnD ABC-type phosphat 74.6 32 0.00068 33.1 10.2 73 293-371 181-260 (299)
40 PRK13718 conjugal transfer pro 65.7 14 0.00029 27.3 4.2 41 407-447 43-83 (84)
41 cd06385 PBP1_NPR_A Ligand-bind 65.3 5.6 0.00012 39.9 3.1 30 1-32 345-375 (405)
42 TIGR01729 taurine_ABC_bnd taur 64.9 41 0.0009 32.0 9.0 99 267-370 101-210 (300)
43 cd06363 PBP1_Taste_receptor Li 58.4 8.2 0.00018 38.8 2.9 31 1-33 349-380 (410)
44 PF14981 FAM165: FAM165 family 55.2 27 0.00058 22.9 3.7 33 405-437 3-35 (51)
45 PF06716 DUF1201: Protein of u 52.2 39 0.00085 22.1 4.1 21 408-428 4-24 (54)
46 PF15179 Myc_target_1: Myc tar 51.5 23 0.00049 30.8 4.0 37 400-436 13-50 (197)
47 PF03401 TctC: Tripartite tric 50.7 54 0.0012 31.0 7.0 88 290-381 134-241 (274)
48 cd06369 PBP1_GC_C_enterotoxin_ 43.0 34 0.00074 33.8 4.3 44 1-46 320-366 (380)
49 PF06305 DUF1049: Protein of u 39.2 41 0.00089 24.0 3.3 29 411-439 24-52 (68)
50 cd01324 cbb3_Oxidase_CcoQ Cyto 39.1 35 0.00077 22.8 2.6 29 192-220 11-39 (48)
51 TIGR01728 SsuA_fam ABC transpo 38.1 2.3E+02 0.005 26.1 9.3 60 267-330 102-166 (288)
52 PF12273 RCR: Chitin synthesis 37.4 21 0.00046 29.5 1.7 24 192-215 2-25 (130)
53 KOG1055 GABA-B ion channel rec 35.1 6 0.00013 42.2 -2.3 45 1-47 388-432 (865)
54 PF04971 Lysis_S: Lysis protei 34.8 47 0.001 23.9 2.8 31 410-440 33-63 (68)
55 PF05545 FixQ: Cbb3-type cytoc 34.8 63 0.0014 21.5 3.4 27 406-432 4-30 (49)
56 PHA02650 hypothetical protein; 34.8 60 0.0013 24.0 3.4 33 188-220 45-77 (81)
57 KOG3713 Voltage-gated K+ chann 33.6 28 0.0006 35.3 2.1 58 201-262 355-414 (477)
58 PHA03049 IMV membrane protein; 33.2 85 0.0018 22.4 3.8 23 417-439 8-30 (68)
59 PF06679 DUF1180: Protein of u 32.4 86 0.0019 27.1 4.6 31 406-436 92-122 (163)
60 PF10661 EssA: WXG100 protein 32.3 44 0.00096 28.3 2.8 28 188-215 115-142 (145)
61 PF14851 FAM176: FAM176 family 31.9 59 0.0013 27.7 3.5 29 407-435 20-50 (153)
62 TIGR00787 dctP tripartite ATP- 30.3 2.2E+02 0.0048 26.3 7.6 91 267-369 137-230 (257)
63 PF01102 Glycophorin_A: Glycop 29.2 1.4E+02 0.0029 24.5 5.0 27 402-428 56-82 (122)
64 PF05961 Chordopox_A13L: Chord 28.7 1.2E+02 0.0026 21.8 4.0 25 415-439 6-30 (68)
65 PF09084 NMT1: NMT1/THI5 like; 27.7 1.6E+02 0.0034 26.1 5.9 71 166-317 70-145 (216)
66 PF06170 DUF983: Protein of un 26.7 1.1E+02 0.0025 23.2 3.9 30 403-432 21-50 (86)
67 PF06645 SPC12: Microsomal sig 26.0 55 0.0012 24.3 2.1 35 405-439 31-65 (76)
68 PRK10537 voltage-gated potassi 25.4 1.1E+02 0.0024 30.7 4.7 40 224-263 165-206 (393)
69 PF13396 PLDc_N: Phospholipase 25.0 75 0.0016 20.6 2.4 28 188-215 18-45 (46)
70 TIGR02976 phageshock_pspB phag 25.0 93 0.002 23.1 3.1 23 418-440 10-32 (75)
71 COG3114 CcmD Heme exporter pro 24.7 25 0.00053 24.9 0.0 28 412-439 18-46 (67)
72 TIGR03061 pip_yhgE_Nterm YhgE/ 24.5 3.6E+02 0.0077 23.0 7.3 19 296-318 84-102 (164)
73 PF01054 MMTV_SAg: Mouse mamma 23.9 92 0.002 28.0 3.4 62 376-439 2-74 (313)
74 PLN03192 Voltage-dependent pot 23.9 1.2E+02 0.0025 33.8 5.1 37 227-263 250-288 (823)
75 COG3105 Uncharacterized protei 23.1 81 0.0018 25.9 2.6 32 191-222 4-35 (138)
76 TIGR03141 cytochro_ccmD heme e 21.9 1.1E+02 0.0023 20.1 2.6 15 410-424 5-19 (45)
77 PF05393 Hum_adeno_E3A: Human 21.7 1.5E+02 0.0033 22.5 3.6 9 431-439 54-62 (94)
78 TIGR03427 ABC_peri_uca ABC tra 21.5 1.1E+02 0.0024 29.7 3.9 59 267-329 107-170 (328)
79 PF08173 YbgT_YccB: Membrane b 21.4 1.9E+02 0.0041 17.0 3.6 21 412-432 3-23 (28)
80 TIGR02106 cyd_oper_ybgT cyd op 21.1 2E+02 0.0043 17.2 3.7 23 412-434 3-25 (30)
81 PF11712 Vma12: Endoplasmic re 20.9 97 0.0021 26.0 2.9 25 415-439 113-137 (142)
82 PF06667 PspB: Phage shock pro 20.2 1.4E+02 0.003 22.2 3.1 23 417-439 9-31 (75)
83 PRK11677 hypothetical protein; 20.1 99 0.0021 25.8 2.7 25 195-219 3-27 (134)
No 1
>KOG1054 consensus Glutamate-gated AMPA-type ion channel receptor subunit GluR2 and related subunits [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=7.3e-70 Score=522.47 Aligned_cols=406 Identities=21% Similarity=0.354 Sum_probs=338.8
Q ss_pred CccceeeeeeeeEEe-eCCcccCCCCEEEEEecCCceEEEEEEcCCCCCccccchhhhhcccCCCCCCCCccCCcceecC
Q 041608 1 IINSRFTSLSGNFQL-VDGKLTSSGAFEIVNVIGKTLKRVGFWSPITRISKEMNSLVLFNKMNISSPSPNDDELEAVIWP 79 (448)
Q Consensus 1 ~~~~~~~G~tg~~~f-~~g~~~~~~~~~i~~~~~~~~~~~g~W~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~wp 79 (448)
|++++++||||+|+| ..|+|+|+ +.+|++++.++.+++|+|.+..|+....+.. +. .+...
T Consensus 351 lk~v~~eGLTGniqFd~~G~R~Ny-t~~i~elk~~~~rk~~~W~e~~~fv~~~t~a----~~---~~d~~---------- 412 (897)
T KOG1054|consen 351 LKQVQVEGLTGNIQFDKYGRRTNY-TIDIVELKSNGSRKVGYWNEGEGFVPGSTVA----QS---RNDQA---------- 412 (897)
T ss_pred HHheeecccccceeecccCccccc-eEEEEEeccCCcceeeeecccCceeeccccc----cc---ccccc----------
Confidence 578999999999999 89999999 9999999999999999999999987754321 00 00000
Q ss_pred CCCCCCCCCCCCCCeEEEEecc-CCcccceecccCCCCCeeEEEehHHHHHHHHHHCCCcccEEEEecC-----CCCCC-
Q 041608 80 GGSAAIPEGGGKINKLRIGVPV-NGFKELVNAARDPQGTLIVEGICIDVFKSAIDSLTFEVPYEFIPFE-----DASGR- 152 (448)
Q Consensus 80 ~~~~~~p~~~~~~~~l~V~~~~-~p~~p~~~~~~d~~~~~~~~G~~idll~~la~~l~f~~~~~~~~~~-----~~~g~- 152 (448)
.. +++++.|.+.. .||.++......-.|+.+|+|||+||+.+||+..+++|++.++++. +.++.
T Consensus 413 ----~~-----~n~tvvvttiL~spyvm~kkn~~~~egn~ryEGyCvdLa~~iAkhi~~~Y~l~iv~dgkyGardaD~k~ 483 (897)
T KOG1054|consen 413 ----SK-----ENRTVVVTTILESPYVMLKKNHEQLEGNERYEGYCVDLAAEIAKHIGIKYKLFIVGDGKYGARDADTKI 483 (897)
T ss_pred ----cc-----ccceEEEEEecCCchhHHHhhHHHhcCCcccceeHHHHHHHHHHhcCceEEEEEecCCcccccCCCccc
Confidence 00 55778888876 6665544321111788999999999999999999999999888764 34555
Q ss_pred cCC----------------------ccccccccccceecceEEEEEc--cCCCCceEeeccCChhHHHHHHHHHHHHHHH
Q 041608 153 MAG----------------------SSLYVDFTLPYTEMGIGMIVPI--DQSNNIWIFLKPLEPNLWLTTAALFLLTSFV 208 (448)
Q Consensus 153 ~~g----------------------R~~~vdFS~p~~~~~~~ilv~~--~~~~~~~~fl~PF~~~vWl~i~~~~~~~~~~ 208 (448)
|+| |++++|||.|||++|++|++++ +..++.|+||.|+..++|+|++.+++.++++
T Consensus 484 WnGMvGeLv~grAdiavApLTIt~~REeviDFSKPfMslGISIMIKKPqKsk~gVFSFldPLa~eIWm~ivfaYiGVSvv 563 (897)
T KOG1054|consen 484 WNGMVGELVYGRADIAVAPLTITLVREEVIDFSKPFMSLGISIMIKKPQKSKPGVFSFLDPLAYEIWMCIVFAYIGVSVV 563 (897)
T ss_pred ccchhHHHhcCccceEEeeeeeehhhhhhhccccchhhcCeEEEEeCcccCCCCeeeecchhHHHHHHHHHHHHhcceEE
Confidence 887 9999999999999999999999 6788999999999999999999999999999
Q ss_pred hhhhccccCCCCC------CC-------cccchhhHHHHHHHHhhhcccc-cccccccchhhhhhhhhh----hcc----
Q 041608 209 MWIIERPVNDEFQ------GS-------RAHQFGMIFWYSFSTLVFSQRE-KLFSNLSKFVVIVWLFVL----ASM---- 266 (448)
Q Consensus 209 l~~~~r~~~~~~~------~~-------~~~~~~~~~w~~~~~l~~q~~~-~~~s~s~Ri~~~~W~~~~----sSy---- 266 (448)
++++.|++|++++ |. ..+++.||+||+++++||||.+ .|||.||||+.++||||+ |||
T Consensus 564 lFLVSrFSPYEwh~Ee~~rg~~t~~~~~NeFgifNsLWFsLgAFMQQG~DI~PRslSGRIvggvWWFFTlIIiSSYTANL 643 (897)
T KOG1054|consen 564 LFLVSRFSPYEWHTEEFERGRFTPSDPPNEFGIFNSLWFSLGAFMQQGCDISPRSLSGRIVGGVWWFFTLIIISSYTANL 643 (897)
T ss_pred EEEEeccCchheeccccccCCCCCCCCCccchhhHHHHHHHHHHHhcCCCCCccccccceeccchhhhhhhhhhhhhhHH
Confidence 9999999998764 21 2347999999999999999977 589999999999999998 888
Q ss_pred ------------------------cceeeecCCcHHhhhhcCCCCcccccccCCHHHHH-------------HHhccCcc
Q 041608 267 ------------------------DNIGSQLGSVVPGALSNLNFKDSRLKKYNSTKEYA-------------NALSKESK 309 (448)
Q Consensus 267 ------------------------~~v~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~-------------~~l~~~~~ 309 (448)
..+|+..+.+..++++ .+++..|+.||.+| +.+.+.|.
T Consensus 644 AAFLTvErMvsPIESaEDLAkQteIaYGt~~~GSTkeFFr-----~Skiavy~kMW~yM~SaepsVFv~t~aeGv~rVRk 718 (897)
T KOG1054|consen 644 AAFLTVERMVSPIESAEDLAKQTEIAYGTLDSGSTKEFFR-----RSKIAVYEKMWTYMKSAEPSVFVRTTAEGVARVRK 718 (897)
T ss_pred HHHHhHHhhcCcchhHHHHhhcceeeeeecCCCchHHHHh-----hhhHHHHHHHHHHHhcCCcceeeehhhhHHHHHHh
Confidence 3567777777776654 34555666666554 23444457
Q ss_pred CCceEEEEcchhhHHHHHHcC-CCceEEeCCCccCCCCCeeEEEecCCccHHHHHHHHHhHhhcCchhHHHHHhcccCCC
Q 041608 310 NGGISAIIDEMPYIKAFLAKY-SAHYTLTAPKNTNSTNGFGFVFQKGSSLVHDISKAIARLREEGTLTKIENEWFIDRQS 388 (448)
Q Consensus 310 ~~~~~a~i~~~~~~~y~~~~~-c~~l~~v~~~~~~~~~~~~~a~~k~spl~~~in~~il~l~e~G~l~~l~~kw~~~~~~ 388 (448)
..|.+||+.|++..+|.-++. | +-+.+|.. +++.+||+|.||||.|+..+|.|+++|.|.|++++|++|||-++ +
T Consensus 719 sKGkyAfLLEsTmNey~eqRkPC-DTMKVGgN--Lds~GYGiATp~Gsslr~~vNLAvLkL~E~G~LdKLkNKWWYDk-G 794 (897)
T KOG1054|consen 719 SKGKYAFLLESTMNEYIEQRKPC-DTMKVGGN--LDSKGYGIATPKGSSLRNAVNLAVLKLNEQGLLDKLKNKWWYDK-G 794 (897)
T ss_pred cCCceEeehHhhhhhhhhccCCc-cceecccc--cCCcceeecCCCCcccccchhhhhhhhcccchHHHhhhhhcccc-c
Confidence 789999999999999998877 9 45668888 99999999999999999999999999999999999999999999 9
Q ss_pred ccCCCCC-CCCCCCCccccchhhHHHHHHHHHHHHHHHHHHHHHHHhccccccCC
Q 041608 389 SFMHKGS-ISDNPSSLSLTNFGGLFLITGISLTLALVIFLLPSIYKKNAFWKEDP 442 (448)
Q Consensus 389 ~c~~~~~-~~~~~~~l~l~~~~g~F~il~~g~~lallv~~~E~~~~~~~~~~~~~ 442 (448)
+|..... .++++.+|+|.+++|+||||.+|+++|+++.++|++|++|...++..
T Consensus 795 eC~sg~~ds~~ktsaLsLSnVAGvFYIL~gGl~laMlvALiEF~yksr~Eakr~k 849 (897)
T KOG1054|consen 795 ECGSGGGDSKDKTSALSLSNVAGVFYILVGGLGLAMLVALIEFCYKSRAEAKRMK 849 (897)
T ss_pred ccCCCCCCCCcchhhcchhhccceeeeehhhHHHHHHHHHHHHHHHhhHHHHhhh
Confidence 9998433 23456899999999999999999999999999999999988776544
No 2
>KOG1053 consensus Glutamate-gated NMDA-type ion channel receptor subunit GRIN2A and related subunits [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=4.6e-56 Score=443.58 Aligned_cols=393 Identities=20% Similarity=0.379 Sum_probs=323.1
Q ss_pred CccceeeeeeeeEEe-eCCcccCCCCEEEEEecC-CceEEEEEEcCCCCCccccchhhhhcccCCCCCCCCccCCcceec
Q 041608 1 IINSRFTSLSGNFQL-VDGKLTSSGAFEIVNVIG-KTLKRVGFWSPITRISKEMNSLVLFNKMNISSPSPNDDELEAVIW 78 (448)
Q Consensus 1 ~~~~~~~G~tg~~~f-~~g~~~~~~~~~i~~~~~-~~~~~~g~W~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~w 78 (448)
|.|++++| ++++| ++|...++ ++-||.+.+ +.|.+||.|..+. |.| +..+|
T Consensus 345 l~NvT~~g--~~lsf~~~g~~v~p-~lvvI~l~~~r~We~VG~We~~~-L~M-----------------------~y~vW 397 (1258)
T KOG1053|consen 345 LANVTWDG--RDLSFNEDGYLVHP-NLVVIDLNRDRTWERVGSWENGT-LVM-----------------------KYPVW 397 (1258)
T ss_pred hheeeecc--cceeecCCceeecc-ceEEEecCCCcchheeceecCCe-EEE-----------------------ecccc
Confidence 57899999 89999 99999999 888888875 5589999997653 544 34568
Q ss_pred CCCCCCCCCCCCCCCeEEEEeccCCcccceeccc-CC------------------------CC----CeeEEEehHHHHH
Q 041608 79 PGGSAAIPEGGGKINKLRIGVPVNGFKELVNAAR-DP------------------------QG----TLIVEGICIDVFK 129 (448)
Q Consensus 79 p~~~~~~p~~~~~~~~l~V~~~~~p~~p~~~~~~-d~------------------------~~----~~~~~G~~idll~ 129 (448)
|-.. ..+..-....||+|++.+ .+||++++. || .. ..|+.||||||++
T Consensus 398 Pr~~-~~~q~~~d~~HL~VvTLe--E~PFVive~vDP~t~~C~~ntvpc~s~~~~t~ss~~~~~~tvKkCCkGfCIDiLk 474 (1258)
T KOG1053|consen 398 PRYH-KFLQPVPDKLHLTVVTLE--ERPFVIVEDVDPLTQTCVRNTVPCRSQLNSTFSSGDEANRTVKKCCKGFCIDILK 474 (1258)
T ss_pred cccc-CccCCCCCcceeEEEEec--cCCeEEEecCCCCcCcCCCCCCcchhhhhhccCCCccCCchHHhhhhhhhHHHHH
Confidence 7322 222222256799999998 334455432 11 11 3589999999999
Q ss_pred HHHHHCCCcccEEEEecCC----CCCCcCC----------------------ccccccccccceecceEEEEEc-cCCCC
Q 041608 130 SAIDSLTFEVPYEFIPFED----ASGRMAG----------------------SSLYVDFTLPYTEMGIGMIVPI-DQSNN 182 (448)
Q Consensus 130 ~la~~l~f~~~~~~~~~~~----~~g~~~g----------------------R~~~vdFS~p~~~~~~~ilv~~-~~~~~ 182 (448)
+||+..||+|+++.+.++. .+|.|+| |+++||||.||.+++++++|+. +...+
T Consensus 475 KlA~~v~FtYDLYlVtnGKhGkk~ng~WnGmIGev~~~rA~MAVgSltINeeRSevVDFSvPFveTgIsVmV~rsngtvs 554 (1258)
T KOG1053|consen 475 KLARDVKFTYDLYLVTNGKHGKKINGVWNGMIGEVVYQRADMAVGSLTINEERSEVVDFSVPFVETGISVMVARSNGTVS 554 (1258)
T ss_pred HHHhhcCcceEEEEecCCcccceecCcchhhHHHHHhhhhheeeeeeEechhhhccccccccccccceEEEEEecCCccC
Confidence 9999999999999998864 4788888 9999999999999999999998 66778
Q ss_pred ceEeeccCChhHHHHHHHHHHHH-HHHhhhhccccCCCCCC---------CcccchhhHHHHHHHHhhhcc--ccccccc
Q 041608 183 IWIFLKPLEPNLWLTTAALFLLT-SFVMWIIERPVNDEFQG---------SRAHQFGMIFWYSFSTLVFSQ--REKLFSN 250 (448)
Q Consensus 183 ~~~fl~PF~~~vWl~i~~~~~~~-~~~l~~~~r~~~~~~~~---------~~~~~~~~~~w~~~~~l~~q~--~~~~~s~ 250 (448)
.-+||.||++.||+.++++++++ ++.++++|.++|..+.. .+.++++.++|+.++.+++.. -+.|+++
T Consensus 555 psAFLePfs~svWVmmFVm~livaai~vFlFEy~SPvgyn~~l~~gkkpggp~FtigkaiwllwaLvFnnsVpv~nPKgt 634 (1258)
T KOG1053|consen 555 PSAFLEPFSPSVWVMMFVMCLIVAAITVFLFEYFSPVGYNRNLANGKKPGGPSFTIGKAIWLLWALVFNNSVPVENPKGT 634 (1258)
T ss_pred chhhcCCcchHHHHHHHHHHHHHHHHHHHHHhhcCcccccccccCCCCCCCcceehhhHHHHHHHHHhCCCcCCCCCCch
Confidence 88999999999999999987654 55677999999876532 245799999999999999866 4578999
Q ss_pred ccchhhhhhhhhh----hcc----------------------------------cceeeecCCcHHhhhhcCCCCc--cc
Q 041608 251 LSKFVVIVWLFVL----ASM----------------------------------DNIGSQLGSVVPGALSNLNFKD--SR 290 (448)
Q Consensus 251 s~Ri~~~~W~~~~----sSy----------------------------------~~v~~~~~s~~~~~l~~~~~~~--~~ 290 (448)
.+||++.+|.||+ +|| .++|++.+++.++.+++. +++ ..
T Consensus 635 TskiMv~VWAfFavifLAsYTANLAAfMIqE~~~d~vSGlsD~KfqrP~dq~PpFRFGTVpngSTE~niR~N-yp~MHeY 713 (1258)
T KOG1053|consen 635 TSKIMVLVWAFFAVIFLASYTANLAAFMIQEEYYDTVSGLSDPKFQRPHDQYPPFRFGTVPNGSTERNIRSN-YPEMHEY 713 (1258)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhccccCcccccCccccCCCcccccCCCCchhhhHHhc-cHHHHHH
Confidence 9999999999887 776 588999888888888733 332 11
Q ss_pred cccc--CCHHHHHHHhccCccCCceEEEEcchhhHHHHHHcC--CCceEEeC--CCccCCCCCeeEEEecCCccHHHHHH
Q 041608 291 LKKY--NSTKEYANALSKESKNGGISAIIDEMPYIKAFLAKY--SAHYTLTA--PKNTNSTNGFGFVFQKGSSLVHDISK 364 (448)
Q Consensus 291 ~~~~--~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~y~~~~~--c~~l~~v~--~~~~~~~~~~~~a~~k~spl~~~in~ 364 (448)
++.| ...+++++.|++ |+.||||+|...++|...++ | .|..+| .. |.+.+||||+|||||++..||.
T Consensus 714 M~kyNq~~v~dal~sLK~----gKLDAFIyDaAVLnY~agkDegC-KLvTIGsgKv--FAttGYGIal~k~Spwkr~Idl 786 (1258)
T KOG1053|consen 714 MVKYNQPGVEDALESLKN----GKLDAFIYDAAVLNYMAGKDEGC-KLVTIGSGKV--FATTGYGIALPKNSPWKRQIDL 786 (1258)
T ss_pred HHHhccCchHHHHHHHhc----ccchhHHHHHHHHHHhhccCCCc-eEEEecCCce--eeecceeeecCCCCcchhhHHH
Confidence 2233 356889999954 55999999999999999987 9 799998 66 9999999999999999999999
Q ss_pred HHHhHhhcCchhHHHHHhcccCCCccCCCCCCCCCCCCccccchhhHHHHHHHHHHHHHHHHHHHHHHHhc
Q 041608 365 AIARLREEGTLTKIENEWFIDRQSSFMHKGSISDNPSSLSLTNFGGLFLITGISLTLALVIFLLPSIYKKN 435 (448)
Q Consensus 365 ~il~l~e~G~l~~l~~kw~~~~~~~c~~~~~~~~~~~~l~l~~~~g~F~il~~g~~lallv~~~E~~~~~~ 435 (448)
+|+++..+|++++|++.|+. +.|.+ +.++..+.+|++++++|+||+|++|+++|+++|++|++++.+
T Consensus 787 allQy~gdGeme~Le~~Wlt---gic~n-~k~evmSsqLdIdnmaGvFymL~~amgLSllvfi~EHlvYw~ 853 (1258)
T KOG1053|consen 787 ALLQYLGDGEMEMLETLWLT---GICHN-SKNEVMSSQLDIDNMAGVFYMLAVAMGLSLLVFIWEHLVYWK 853 (1258)
T ss_pred HHHHHhccchHHHHHHHHhh---ccccc-chhhhhhcccChhhhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999998 56776 667788899999999999999999999999999999976543
No 3
>KOG4440 consensus NMDA selective glutamate-gated ion channel receptor subunit GRIN1 [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=2.9e-54 Score=416.79 Aligned_cols=399 Identities=21% Similarity=0.351 Sum_probs=327.8
Q ss_pred eeeeeeeeEEe-eCCcccCCCCEEEEEecCCc-eEEEEEEcCCCCCccccchhhhhcccCCCCCCCCccCCcceecCCCC
Q 041608 5 RFTSLSGNFQL-VDGKLTSSGAFEIVNVIGKT-LKRVGFWSPITRISKEMNSLVLFNKMNISSPSPNDDELEAVIWPGGS 82 (448)
Q Consensus 5 ~~~G~tg~~~f-~~g~~~~~~~~~i~~~~~~~-~~~~g~W~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~wp~~~ 82 (448)
..+|.||+++| ++|.|+-. .|||+|+..+. ...+|..+ |+.... +-+.++|||+-
T Consensus 336 ~~~g~TgrV~Fnd~gdRi~a-~YdiiN~hq~rk~Vg~~~yd---~~r~~~-------------------nd~~IiWpGg~ 392 (993)
T KOG4440|consen 336 YADGVTGRVEFNDDGDRIFA-NYDIINLHQNRKLVGVGIYD---GTRVIP-------------------NDRKIIWPGGE 392 (993)
T ss_pred ccCCcceeEEEcCCCceeec-cceeEehhhhhhhhhhcccc---ceeecc-------------------CCceeecCCCC
Confidence 35899999999 99999999 99999996442 23333332 222211 12568999999
Q ss_pred CCCCCCCCCCCeEEEEecc-CCcccceeccc---------------C--------------C-----CCCeeEEEehHHH
Q 041608 83 AAIPEGGGKINKLRIGVPV-NGFKELVNAAR---------------D--------------P-----QGTLIVEGICIDV 127 (448)
Q Consensus 83 ~~~p~~~~~~~~l~V~~~~-~p~~p~~~~~~---------------d--------------~-----~~~~~~~G~~idl 127 (448)
+..|++..--+||||.+.+ +|| ++++. | | ...-|+.||||||
T Consensus 393 ~~KP~gi~~pthLrivTi~~~PF---VYv~p~~sd~~c~eef~~~~d~~~k~~c~gpn~s~p~s~~~t~~fCC~G~cIDL 469 (993)
T KOG4440|consen 393 TEKPRGIQMPTHLRIVTIHQEPF---VYVKPTLSDGTCKEEFTVNGDPVKKVICTGPNDSSPGSPRHTVPFCCYGFCIDL 469 (993)
T ss_pred cCCCccccccceeEEEEeccCCe---EEEecCCCCcchhhhccccCCcccceeecCCCCCCCCCcccCcchhhhHHHHHH
Confidence 9999999877999999998 666 44320 1 1 1134789999999
Q ss_pred HHHHHHHCCCcccEEEEecCC-------------CCCCcCC----------------------ccccccccccceecceE
Q 041608 128 FKSAIDSLTFEVPYEFIPFED-------------ASGRMAG----------------------SSLYVDFTLPYTEMGIG 172 (448)
Q Consensus 128 l~~la~~l~f~~~~~~~~~~~-------------~~g~~~g----------------------R~~~vdFS~p~~~~~~~ 172 (448)
+-++++++||+|+..++++.. ..-+|+| |+++++||.||...|+.
T Consensus 470 Li~Ls~~~Nftyd~~l~~dg~fg~~~~vnnsseT~~kew~G~iGEL~~~~ADMivaplTINpERa~yieFskPfkYqGit 549 (993)
T KOG4440|consen 470 LIKLSRTMNFTYDVHLVADGKFGTQERVNNSSETNKKEWNGMIGELLSGQADMIVAPLTINPERAQYIEFSKPFKYQGIT 549 (993)
T ss_pred HHHHHHhhcceEEEEEeecccccceeeeecccccccceehhhhhhhhCCccceEeeceeeChhhhhheeccCcccccceE
Confidence 999999999999999988642 1124555 99999999999999999
Q ss_pred EEEEc-cCCCCceEeeccCChhHHHHHHHHHHHHHHHhhhhccccCCC-CCC-------CcccchhhHHHHHHHHhhhcc
Q 041608 173 MIVPI-DQSNNIWIFLKPLEPNLWLTTAALFLLTSFVMWIIERPVNDE-FQG-------SRAHQFGMIFWYSFSTLVFSQ 243 (448)
Q Consensus 173 ilv~~-~~~~~~~~fl~PF~~~vWl~i~~~~~~~~~~l~~~~r~~~~~-~~~-------~~~~~~~~~~w~~~~~l~~q~ 243 (448)
|+.++ .+.+.+-+||+||+.++|+++++++.++++++|+++|++|.+ ++- ....+++.++||++|.|++.|
T Consensus 550 ILeKk~~r~Stl~SFlQPfqstLW~lv~~SVhvVal~lYlLDrfSPFgRFk~~ds~~~ee~alnlssAmWF~WGVLLNSG 629 (993)
T KOG4440|consen 550 ILEKKEIRRSTLDSFLQPFQSTLWLLVGLSVHVVALMLYLLDRFSPFGRFKVNDSEEEEEDALNLSSAMWFSWGVLLNSG 629 (993)
T ss_pred EEeeCCCCCchHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccceeeccCccchhhhcchhhhHHHHhHhhhccc
Confidence 99999 677788899999999999999999999999999999998854 211 123489999999999999987
Q ss_pred -cc-cccccccchhhhhhhhhh----hcc-------------------------------cceeeecCCcHHhhhhcCC-
Q 041608 244 -RE-KLFSNLSKFVVIVWLFVL----ASM-------------------------------DNIGSQLGSVVPGALSNLN- 285 (448)
Q Consensus 244 -~~-~~~s~s~Ri~~~~W~~~~----sSy-------------------------------~~v~~~~~s~~~~~l~~~~- 285 (448)
++ .|||.|+|++..+|+=|+ +|| ..+|++++|++..|++++-
T Consensus 630 igEgtPRSfSARvLGmVWaGFaMIiVASYTANLAAFLVLdrPe~~ltGinDpRLRNps~nf~~aTVk~SsVd~YFrRqVE 709 (993)
T KOG4440|consen 630 IGEGTPRSFSARVLGMVWAGFAMIIVASYTANLAAFLVLDRPEERLTGINDPRLRNPSDNFIYATVKQSSVDIYFRRQVE 709 (993)
T ss_pred cCCCCCcchhHHHHHHHHhhhheeeehhhhhhhhhheeecCccccccCCCCccccCcccceeEEEecCccHHHHHHHHhH
Confidence 55 689999999999998444 777 4678899999999996321
Q ss_pred ----CCcccccccCCHHHHHHHhccCccCCceEEEEcchhhHHHHHHcCCCceEEeCCCccCCCCCeeEEEecCCccHHH
Q 041608 286 ----FKDSRLKKYNSTKEYANALSKESKNGGISAIIDEMPYIKAFLAKYSAHYTLTAPKNTNSTNGFGFVFQKGSSLVHD 361 (448)
Q Consensus 286 ----~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~y~~~~~c~~l~~v~~~~~~~~~~~~~a~~k~spl~~~ 361 (448)
+..-.-..|.+.+++++++++|+ .+||+.|+..++|..+++| .|...|+. |...+||++++||||+.+.
T Consensus 710 LS~MyR~ME~hNy~~A~eAiq~v~~gk----L~AFIWDS~rLEfEAs~~C-eLvT~GeL--FgRSgyGIGlqK~SPWt~~ 782 (993)
T KOG4440|consen 710 LSTMYRHMEKHNYESAAEAIQAVRDGK----LHAFIWDSARLEFEASQKC-ELVTTGEL--FGRSGYGIGLQKDSPWTQN 782 (993)
T ss_pred HHHHHHhhhhcchhhHHHHHHHHHcCc----eeEEEeecceeeehhhccc-ceEecccc--ccccccccccccCCCCcch
Confidence 11112234677788888996666 9999999999999999999 89999999 9999999999999999999
Q ss_pred HHHHHHhHhhcCchhHHHHHhcccCCC-ccCCCCCCCCCCCCccccchhhHHHHHHHHHHHHHHHHHHHHHHHhccccc
Q 041608 362 ISKAIARLREEGTLTKIENEWFIDRQS-SFMHKGSISDNPSSLSLTNFGGLFLITGISLTLALVIFLLPSIYKKNAFWK 439 (448)
Q Consensus 362 in~~il~l~e~G~l~~l~~kw~~~~~~-~c~~~~~~~~~~~~l~l~~~~g~F~il~~g~~lallv~~~E~~~~~~~~~~ 439 (448)
+..+|++++|+|+++++.++|.....+ .|.. ....+..|++++++|+|++.+.|+++++.+.++|..|++++..+
T Consensus 783 vtlaIL~~hEsGfMEkLDk~Wi~~Ggpq~c~~---~~k~PatLgl~NMagvFiLV~~Gia~GifLifiEv~Ykrh~~~k 858 (993)
T KOG4440|consen 783 VTLAILKSHESGFMEKLDKTWIRYGGPQECDS---RSKAPATLGLENMAGVFILVAGGIAAGIFLIFIEVAYKRHKDAK 858 (993)
T ss_pred hhHHHHHhhhcchHHHHHHHHHhcCCcchhhh---hccCcccccccccccEEEEEecchhheeeEEEEeehhhhhhhhh
Confidence 999999999999999999999987522 3433 45577899999999999999999999999999999998887765
No 4
>KOG1052 consensus Glutamate-gated kainate-type ion channel receptor subunit GluR5 and related subunits [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=3e-50 Score=427.49 Aligned_cols=395 Identities=30% Similarity=0.511 Sum_probs=332.8
Q ss_pred eeeeeEEe-eCCcccCCCCEEEEEecCCceEEEEEEcCCCCCccccchhhhhcccCCCCCCCCccCCcceecCCCCCCCC
Q 041608 8 SLSGNFQL-VDGKLTSSGAFEIVNVIGKTLKRVGFWSPITRISKEMNSLVLFNKMNISSPSPNDDELEAVIWPGGSAAIP 86 (448)
Q Consensus 8 G~tg~~~f-~~g~~~~~~~~~i~~~~~~~~~~~g~W~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~wp~~~~~~p 86 (448)
|++|.+.+ .++.+.++ .++|+|+.+++...+|.|++..| ..+.|||.....|
T Consensus 154 ~~~~~~~~~~~~~~~~~-~~~i~n~~~~~~~~ig~W~~~~~--------------------------~~i~~~~~~~~~~ 206 (656)
T KOG1052|consen 154 GVTGQFQFFRGGLLEYF-KYEILNLNGSGERRIGYWYPRGG--------------------------ENISWPGKDYFVP 206 (656)
T ss_pred cceeEEEecCCCccccc-eEEEEEecCcCceeEEEecCCCC--------------------------ceeeccCCcccCc
Confidence 77889999 68899999 99999999999999999998876 1367999999999
Q ss_pred CCCC---CCCeEEEEecc-CCcccceecccCCCCCeeEEEehHHHHHHHHHHCCCcccEEEEecCC----CCCCcCC---
Q 041608 87 EGGG---KINKLRIGVPV-NGFKELVNAARDPQGTLIVEGICIDVFKSAIDSLTFEVPYEFIPFED----ASGRMAG--- 155 (448)
Q Consensus 87 ~~~~---~~~~l~V~~~~-~p~~p~~~~~~d~~~~~~~~G~~idll~~la~~l~f~~~~~~~~~~~----~~g~~~g--- 155 (448)
++|. ++++++|++.. +||..++.......++.++.|||+||+++++++|||+|+++.++++. .+|.|+|
T Consensus 207 ~~~~~~~~~~~l~v~~~~~~P~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~f~~~~~~~~~~~g~~~~~g~~~g~v~ 286 (656)
T KOG1052|consen 207 KGWFFPTNGKPLRVGVVTEPPFVDLVEDLAILNGNDRIEGFEIDLLQALAKRLNFSYEIIFVPDGSGSRDPNGNWDGLVG 286 (656)
T ss_pred CCccccCCCceEEEEEeccCCceeeeecccccCCCCccceEEehHHHHHHHhCCCceEEEEcCCCCCCCCCCCChhHHHH
Confidence 9998 59999999998 77765554220114667899999999999999999999999988753 2356776
Q ss_pred ------------------ccccccccccceecceEEEEEc-cCCCCceEeeccCChhHHHHHHHHHHHHHHHhhhhcccc
Q 041608 156 ------------------SSLYVDFTLPYTEMGIGMIVPI-DQSNNIWIFLKPLEPNLWLTTAALFLLTSFVMWIIERPV 216 (448)
Q Consensus 156 ------------------R~~~vdFS~p~~~~~~~ilv~~-~~~~~~~~fl~PF~~~vWl~i~~~~~~~~~~l~~~~r~~ 216 (448)
|++++|||.||++.++++++++ +.....|.|+.||+++||++++++++++++++|+++|+.
T Consensus 287 ~l~~~~advg~~~tit~~R~~~vdfT~p~~~~~~~i~~~~~~~~~~~~~fl~Pf~~~vW~~i~~~~l~~~~~~~~~~~~~ 366 (656)
T KOG1052|consen 287 QLVDGEADVGADITITPERSKYVDFTIPYLQFGIVIIVRKPDSRSKLWNFLAPFSPEVWLLILASLLLVGLLLWILERLS 366 (656)
T ss_pred HHhcCccccccceEEeecccccEEeccceEeccEEEEEEecCCcccceEEecCCcHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 9999999999999999999999 333338999999999999999999999999999999988
Q ss_pred CCCCCCC----cccchhhHHHHHHHHhhhccc-ccccccccchhhhhhhhhh----hcc---------------------
Q 041608 217 NDEFQGS----RAHQFGMIFWYSFSTLVFSQR-EKLFSNLSKFVVIVWLFVL----ASM--------------------- 266 (448)
Q Consensus 217 ~~~~~~~----~~~~~~~~~w~~~~~l~~q~~-~~~~s~s~Ri~~~~W~~~~----sSy--------------------- 266 (448)
+.++..+ ....+.+++|++++++++|++ ..|++.++|++.++|||++ +||
T Consensus 367 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~p~~~~~Rll~~~w~~~~lil~ssYTa~L~a~Lt~~~~~~~i~~~~ 446 (656)
T KOG1052|consen 367 PYELPPRQIVTSLFSLLNCLWLTVGSLLQQGSDEIPRSLSTRLLLGAWWLFVLILISSYTANLTAFLTVPRLRSPIDSLD 446 (656)
T ss_pred cccCCccccceeEeecccchhhhhHHHhccCCCccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHhcccccCCcccCHH
Confidence 8887111 112567889999999999884 5789999999999999997 555
Q ss_pred -------cceeeecCCcHHhhhhcC----CCCcc-cccccCCHHHHHHHhccCccCCceEEEEcchhhHHHHHHcC--CC
Q 041608 267 -------DNIGSQLGSVVPGALSNL----NFKDS-RLKKYNSTKEYANALSKESKNGGISAIIDEMPYIKAFLAKY--SA 332 (448)
Q Consensus 267 -------~~v~~~~~s~~~~~l~~~----~~~~~-~~~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~y~~~~~--c~ 332 (448)
..+|+..++....+++.. .+..+ ....+.+.+++.+++++|.. +.++++.+.....|...++ |
T Consensus 447 dL~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~v~~~~~--~~~~~~~~~~~~~~~~~~~~~c- 523 (656)
T KOG1052|consen 447 DLADQSNIPYGTQRGSFTRIYLEESEDMWAFKVSQRSVPLASPEEGVERVRKGPS--GGYAFASDELYLAYLFLRDEIC- 523 (656)
T ss_pred HHHHhcCCeEEEEecchHHHHHHHHHHHHhhhccCCCccCCCHHHHHHHHHcCCC--CceEEEeccHHHHHHHhhcCCC-
Confidence 567888898888888644 23333 56788999999999987642 4567777776677766665 8
Q ss_pred ceEEeCCCccCCCCCeeEEEecCCccHHHHHHHHHhHhhcCchhHHHHHhcccC--CCccCCCCCCCCCCCCccccchhh
Q 041608 333 HYTLTAPKNTNSTNGFGFVFQKGSSLVHDISKAIARLREEGTLTKIENEWFIDR--QSSFMHKGSISDNPSSLSLTNFGG 410 (448)
Q Consensus 333 ~l~~v~~~~~~~~~~~~~a~~k~spl~~~in~~il~l~e~G~l~~l~~kw~~~~--~~~c~~~~~~~~~~~~l~l~~~~g 410 (448)
+++.+++. +...+|+ ++||||||++.+|.+|+++.|.|.++++++||+..+ ...|.. . . ....++++++.|
T Consensus 524 ~~~~v~~~--~~~~~~~-~~~~~Spl~~~is~~Il~l~e~g~l~~~~~kw~~~~~~~~~~~~-~--~-~~~~l~~~~~~g 596 (656)
T KOG1052|consen 524 DLTEVGEP--FLYKGYG-AFPKGSPLRSLISRAILKLQETGILQKLKRKWFSKKPCLPKCSQ-T--E-KTKALDLESFWG 596 (656)
T ss_pred ceEEeCCc--ccCCCcc-eecCCCccHHHHHHHHHhhccccHHHHHHHHhccCCCCCCCCCC-c--c-cccccchhhHHH
Confidence 89999999 9999999 999999999999999999999999999999999975 245555 1 1 677899999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhccccc
Q 041608 411 LFLITGISLTLALVIFLLPSIYKKNAFWK 439 (448)
Q Consensus 411 ~F~il~~g~~lallv~~~E~~~~~~~~~~ 439 (448)
+|+++++|+++|+++|++|++|++++.+.
T Consensus 597 ~F~i~~~g~~lal~vfi~E~~~~~~~~~~ 625 (656)
T KOG1052|consen 597 LFLILLVGYLLALLVFILELLYSRRRTLL 625 (656)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 99999999999999999999999988864
No 5
>PRK09495 glnH glutamine ABC transporter periplasmic protein; Reviewed
Probab=99.83 E-value=1.1e-19 Score=170.36 Aligned_cols=206 Identities=18% Similarity=0.315 Sum_probs=164.7
Q ss_pred CCCeEEEEeccCCcccceecccCCCCCeeEEEehHHHHHHHHHHCCCcccEEEEecCC-----CCCCcC----C------
Q 041608 91 KINKLRIGVPVNGFKELVNAARDPQGTLIVEGICIDVFKSAIDSLTFEVPYEFIPFED-----ASGRMA----G------ 155 (448)
Q Consensus 91 ~~~~l~V~~~~~p~~p~~~~~~d~~~~~~~~G~~idll~~la~~l~f~~~~~~~~~~~-----~~g~~~----g------ 155 (448)
+.++|+|++. +.++||.+. .++++.|+++||++++++++|.+++++..++.. ..|..+ +
T Consensus 23 ~~~~l~v~~~-~~~~P~~~~-----~~g~~~G~~vdl~~~ia~~lg~~~~~~~~~~~~~~~~l~~G~vDi~~~~~~~t~~ 96 (247)
T PRK09495 23 ADKKLVVATD-TAFVPFEFK-----QGDKYVGFDIDLWAAIAKELKLDYTLKPMDFSGIIPALQTKNVDLALAGITITDE 96 (247)
T ss_pred cCCeEEEEeC-CCCCCeeec-----CCCceEEEeHHHHHHHHHHhCCceEEEeCCHHHHHHHHhCCCcCEEEecCccCHH
Confidence 4579999987 457777763 346699999999999999999887776655531 122211 1
Q ss_pred ccccccccccceecceEEEEEccCC-CCceEeeccCChhHHHHHHHHHHHHHHHhhhhccccCCCCCCCcccchhhHHHH
Q 041608 156 SSLYVDFTLPYTEMGIGMIVPIDQS-NNIWIFLKPLEPNLWLTTAALFLLTSFVMWIIERPVNDEFQGSRAHQFGMIFWY 234 (448)
Q Consensus 156 R~~~vdFS~p~~~~~~~ilv~~~~~-~~~~~fl~PF~~~vWl~i~~~~~~~~~~l~~~~r~~~~~~~~~~~~~~~~~~w~ 234 (448)
|++.++||.||+.+++.++++++.. .. +..++.|
T Consensus 97 R~~~~~fs~p~~~~~~~~~~~~~~~~~~---------------------------------~~~dL~g------------ 131 (247)
T PRK09495 97 RKKAIDFSDGYYKSGLLVMVKANNNDIK---------------------------------SVKDLDG------------ 131 (247)
T ss_pred HHhhccccchheecceEEEEECCCCCCC---------------------------------ChHHhCC------------
Confidence 9999999999999999999987322 11 3456777
Q ss_pred HHHHhhhcccccccccccchhhhhhhhhhhcccceeeecCCcHHhhhhcCCCCcccccccCCHHHHHHHhccCccCCceE
Q 041608 235 SFSTLVFSQREKLFSNLSKFVVIVWLFVLASMDNIGSQLGSVVPGALSNLNFKDSRLKKYNSTKEYANALSKESKNGGIS 314 (448)
Q Consensus 235 ~~~~l~~q~~~~~~s~s~Ri~~~~W~~~~sSy~~v~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~ 314 (448)
++||+..|+....+++.. .+..++..+++..+.+++|.+|+ +|
T Consensus 132 --------------------------------~~I~v~~g~~~~~~l~~~-~~~~~i~~~~~~~~~~~~L~~gr----vD 174 (247)
T PRK09495 132 --------------------------------KVVAVKSGTGSVDYAKAN-IKTKDLRQFPNIDNAYLELGTGR----AD 174 (247)
T ss_pred --------------------------------CEEEEecCchHHHHHHhc-CCCCceEEcCCHHHHHHHHHcCc----ee
Confidence 899999999888888643 44557777889999999996666 99
Q ss_pred EEEcchhhHHHHHHcC-CCceEEeCCCccCCCCCeeEEEecCCccHHHHHHHHHhHhhcCchhHHHHHhcccC
Q 041608 315 AIIDEMPYIKAFLAKY-SAHYTLTAPKNTNSTNGFGFVFQKGSSLVHDISKAIARLREEGTLTKIENEWFIDR 386 (448)
Q Consensus 315 a~i~~~~~~~y~~~~~-c~~l~~v~~~~~~~~~~~~~a~~k~spl~~~in~~il~l~e~G~l~~l~~kw~~~~ 386 (448)
+++.+...+.|++++. ...+..++.. .....++++++|++.+++.+|++|.++.++|.++++.+||+...
T Consensus 175 a~i~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~a~~~~~~l~~~~n~al~~~~~~g~~~~i~~k~~~~~ 245 (247)
T PRK09495 175 AVLHDTPNILYFIKTAGNGQFKAVGDS--LEAQQYGIAFPKGSELREKVNGALKTLKENGTYAEIYKKWFGTE 245 (247)
T ss_pred EEEeChHHHHHHHHhCCCCceEEecCc--ccccceEEEEcCcHHHHHHHHHHHHHHHHCCcHHHHHHHHcCCC
Confidence 9999999899888775 4467777776 67788999999999999999999999999999999999999764
No 6
>PRK10797 glutamate and aspartate transporter subunit; Provisional
Probab=99.82 E-value=3.5e-19 Score=171.63 Aligned_cols=208 Identities=14% Similarity=0.208 Sum_probs=160.9
Q ss_pred CCCeEEEEeccCCcccceecccCCCCCeeEEEehHHHHHHHHH----HCCC-cccEEEEecCCC-------CCCcC----
Q 041608 91 KINKLRIGVPVNGFKELVNAARDPQGTLIVEGICIDVFKSAID----SLTF-EVPYEFIPFEDA-------SGRMA---- 154 (448)
Q Consensus 91 ~~~~l~V~~~~~p~~p~~~~~~d~~~~~~~~G~~idll~~la~----~l~f-~~~~~~~~~~~~-------~g~~~---- 154 (448)
+.+.|+||+. +.|+||.+. ++++++.||++||+++|++ +||. .++++++++... .|..+
T Consensus 38 ~~g~L~Vg~~-~~~pP~~f~----~~~g~~~G~didl~~~ia~~l~~~lg~~~~~~~~v~~~~~~~i~~L~~G~~Di~~~ 112 (302)
T PRK10797 38 KNGVIVVGHR-ESSVPFSYY----DNQQKVVGYSQDYSNAIVEAVKKKLNKPDLQVKLIPITSQNRIPLLQNGTFDFECG 112 (302)
T ss_pred hCCeEEEEEc-CCCCCcceE----CCCCCEeeecHHHHHHHHHHHHHhhCCCCceEEEEEcChHhHHHHHHCCCccEEec
Confidence 6788999998 567777764 3446799999998777765 6764 356666765311 22211
Q ss_pred -----C-ccccccccccceecceEEEEEccCCCCceEeeccCChhHHHHHHHHHHHHHHHhhhhccccCCCCCCCcccch
Q 041608 155 -----G-SSLYVDFTLPYTEMGIGMIVPIDQSNNIWIFLKPLEPNLWLTTAALFLLTSFVMWIIERPVNDEFQGSRAHQF 228 (448)
Q Consensus 155 -----g-R~~~vdFS~p~~~~~~~ilv~~~~~~~~~~fl~PF~~~vWl~i~~~~~~~~~~l~~~~r~~~~~~~~~~~~~~ 228 (448)
. |.+.++||.||+.++.+++++++.... +..++.|
T Consensus 113 ~~~~t~eR~~~~~fS~Py~~~~~~lv~r~~~~i~---------------------------------sl~dL~G------ 153 (302)
T PRK10797 113 STTNNLERQKQAAFSDTIFVVGTRLLTKKGGDIK---------------------------------DFADLKG------ 153 (302)
T ss_pred CCccCcchhhcceecccEeeccEEEEEECCCCCC---------------------------------ChHHcCC------
Confidence 1 999999999999999999999843211 3467778
Q ss_pred hhHHHHHHHHhhhcccccccccccchhhhhhhhhhhcccceeeecCCcHHhhhhcCC---CCcccccccCCHHHHHHHhc
Q 041608 229 GMIFWYSFSTLVFSQREKLFSNLSKFVVIVWLFVLASMDNIGSQLGSVVPGALSNLN---FKDSRLKKYNSTKEYANALS 305 (448)
Q Consensus 229 ~~~~w~~~~~l~~q~~~~~~s~s~Ri~~~~W~~~~sSy~~v~~~~~s~~~~~l~~~~---~~~~~~~~~~~~~~~~~~l~ 305 (448)
+++|+..|+....+++... .+..+++.+.+.++.+++|.
T Consensus 154 --------------------------------------k~V~v~~gs~~~~~l~~~~~~~~~~~~i~~~~~~~~~l~~L~ 195 (302)
T PRK10797 154 --------------------------------------KAVVVTSGTTSEVLLNKLNEEQKMNMRIISAKDHGDSFRTLE 195 (302)
T ss_pred --------------------------------------CEEEEeCCCcHHHHHHHHhhhcCCceEEEEeCCHHHHHHHHH
Confidence 8999999999988875321 22356778899999999996
Q ss_pred cCccCCceEEEEcchhhHHHHHHcC--CCceEEeCCCccCCCCCeeEEEecCCc-cHHHHHHHHHhHhhcCchhHHHHHh
Q 041608 306 KESKNGGISAIIDEMPYIKAFLAKY--SAHYTLTAPKNTNSTNGFGFVFQKGSS-LVHDISKAIARLREEGTLTKIENEW 382 (448)
Q Consensus 306 ~~~~~~~~~a~i~~~~~~~y~~~~~--c~~l~~v~~~~~~~~~~~~~a~~k~sp-l~~~in~~il~l~e~G~l~~l~~kw 382 (448)
.|+ +||++.+...+.+.+.+. .+.++++++. +...+|+++++|+++ +++.+|++|.+++++|.+++|.+||
T Consensus 196 ~Gr----vDa~i~d~~~~~~~~~~~~~~~~l~i~~~~--~~~~~~~~a~~k~~~~L~~~in~~L~~l~~~G~l~~i~~kw 269 (302)
T PRK10797 196 SGR----AVAFMMDDALLAGERAKAKKPDNWEIVGKP--QSQEAYGCMLRKDDPQFKKLMDDTIAQAQTSGEAEKWFDKW 269 (302)
T ss_pred cCC----ceEEEccHHHHHHHHHcCCCCcceEECCcc--CCcCceeEEEeCCCHHHHHHHHHHHHHHHhCchHHHHHHHH
Confidence 665 999999988876654432 3357888877 778899999999987 9999999999999999999999999
Q ss_pred cccC
Q 041608 383 FIDR 386 (448)
Q Consensus 383 ~~~~ 386 (448)
+...
T Consensus 270 ~~~~ 273 (302)
T PRK10797 270 FKNP 273 (302)
T ss_pred cCCC
Confidence 9864
No 7
>PRK11260 cystine transporter subunit; Provisional
Probab=99.81 E-value=9.3e-19 Score=166.02 Aligned_cols=209 Identities=19% Similarity=0.325 Sum_probs=165.6
Q ss_pred CCCeEEEEeccCCcccceecccCCCCCeeEEEehHHHHHHHHHHCCCcccEEEEecCC-----CCCCcCC----------
Q 041608 91 KINKLRIGVPVNGFKELVNAARDPQGTLIVEGICIDVFKSAIDSLTFEVPYEFIPFED-----ASGRMAG---------- 155 (448)
Q Consensus 91 ~~~~l~V~~~~~p~~p~~~~~~d~~~~~~~~G~~idll~~la~~l~f~~~~~~~~~~~-----~~g~~~g---------- 155 (448)
.+++|+|++. ..++||.+. +.++++.|+.+|+++++++++|.++++...++.. .+|..+.
T Consensus 39 ~~~~l~v~~~-~~~~P~~~~----~~~g~~~G~~~dl~~~i~~~lg~~~e~~~~~~~~~~~~l~~G~~D~~~~~~~~~~~ 113 (266)
T PRK11260 39 ERGTLLVGLE-GTYPPFSFQ----GEDGKLTGFEVEFAEALAKHLGVKASLKPTKWDGMLASLDSKRIDVVINQVTISDE 113 (266)
T ss_pred cCCeEEEEeC-CCcCCceEE----CCCCCEEEehHHHHHHHHHHHCCeEEEEeCCHHHHHHHHhcCCCCEEEeccccCHH
Confidence 6789999987 456677653 3456799999999999999999988777665531 1222221
Q ss_pred ccccccccccceecceEEEEEccCCCCceEeeccCChhHHHHHHHHHHHHHHHhhhhccccCCCCCCCcccchhhHHHHH
Q 041608 156 SSLYVDFTLPYTEMGIGMIVPIDQSNNIWIFLKPLEPNLWLTTAALFLLTSFVMWIIERPVNDEFQGSRAHQFGMIFWYS 235 (448)
Q Consensus 156 R~~~vdFS~p~~~~~~~ilv~~~~~~~~~~fl~PF~~~vWl~i~~~~~~~~~~l~~~~r~~~~~~~~~~~~~~~~~~w~~ 235 (448)
|.+.++||.||+..+..++++++..... .+..++.|
T Consensus 114 r~~~~~fs~p~~~~~~~~~~~~~~~~~~-------------------------------~~~~dL~g------------- 149 (266)
T PRK11260 114 RKKKYDFSTPYTVSGIQALVKKGNEGTI-------------------------------KTAADLKG------------- 149 (266)
T ss_pred HHhccccCCceeecceEEEEEcCCcCCC-------------------------------CCHHHcCC-------------
Confidence 8899999999999999999987322111 02355667
Q ss_pred HHHhhhcccccccccccchhhhhhhhhhhcccceeeecCCcHHhhhhcCCCCcccccccCCHHHHHHHhccCccCCceEE
Q 041608 236 FSTLVFSQREKLFSNLSKFVVIVWLFVLASMDNIGSQLGSVVPGALSNLNFKDSRLKKYNSTKEYANALSKESKNGGISA 315 (448)
Q Consensus 236 ~~~l~~q~~~~~~s~s~Ri~~~~W~~~~sSy~~v~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a 315 (448)
+++|+..|+....++++ .++..++..+++..+++++|.+|+ +|+
T Consensus 150 -------------------------------~~Igv~~G~~~~~~l~~-~~~~~~i~~~~~~~~~l~~L~~Gr----vD~ 193 (266)
T PRK11260 150 -------------------------------KKVGVGLGTNYEQWLRQ-NVQGVDVRTYDDDPTKYQDLRVGR----IDA 193 (266)
T ss_pred -------------------------------CEEEEecCCcHHHHHHH-hCCCCceEecCCHHHHHHHHHcCC----CCE
Confidence 89999999998888864 355567788999999999996555 999
Q ss_pred EEcchhhHHHHHHcCCCceEEeCCCccCCCCCeeEEEecCCc-cHHHHHHHHHhHhhcCchhHHHHHhcccC
Q 041608 316 IIDEMPYIKAFLAKYSAHYTLTAPKNTNSTNGFGFVFQKGSS-LVHDISKAIARLREEGTLTKIENEWFIDR 386 (448)
Q Consensus 316 ~i~~~~~~~y~~~~~c~~l~~v~~~~~~~~~~~~~a~~k~sp-l~~~in~~il~l~e~G~l~~l~~kw~~~~ 386 (448)
++.+...+.+++++..+.+.+.... +...+++++++|+++ +++.+|++|.+++++|.++++.+||++..
T Consensus 194 ~i~d~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~v~~~~~~l~~~ln~~l~~~~~~g~~~~i~~k~~~~~ 263 (266)
T PRK11260 194 ILVDRLAALDLVKKTNDTLAVAGEA--FSRQESGVALRKGNPDLLKAVNQAIAEMQKDGTLKALSEKWFGAD 263 (266)
T ss_pred EEechHHHHHHHHhCCCcceecCCc--cccCceEEEEeCCCHHHHHHHHHHHHHHHhCCcHHHHHHHhcCCc
Confidence 9999998888888765446665666 778899999999988 99999999999999999999999999874
No 8
>PRK15007 putative ABC transporter arginine-biding protein; Provisional
Probab=99.80 E-value=1.8e-18 Score=161.70 Aligned_cols=205 Identities=16% Similarity=0.315 Sum_probs=156.9
Q ss_pred CCCeEEEEeccCCcccceecccCCCCCeeEEEehHHHHHHHHHHCCCcccEEEEecCC-----CCCCcCC----------
Q 041608 91 KINKLRIGVPVNGFKELVNAARDPQGTLIVEGICIDVFKSAIDSLTFEVPYEFIPFED-----ASGRMAG---------- 155 (448)
Q Consensus 91 ~~~~l~V~~~~~p~~p~~~~~~d~~~~~~~~G~~idll~~la~~l~f~~~~~~~~~~~-----~~g~~~g---------- 155 (448)
..++|+|++. +.++||.+. +.++++.|+++|+++++++++|++++|...+++. ..|..+.
T Consensus 19 ~~~~l~v~~~-~~~~P~~~~----~~~g~~~G~~~dl~~~i~~~lg~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~ 93 (243)
T PRK15007 19 AAETIRFATE-ASYPPFESI----DANNQIVGFDVDLAQALCKEIDATCTFSNQAFDSLIPSLKFRRVEAVMAGMDITPE 93 (243)
T ss_pred cCCcEEEEeC-CCCCCceee----CCCCCEEeeeHHHHHHHHHHhCCcEEEEeCCHHHHhHHHhCCCcCEEEEcCccCHH
Confidence 4578999997 356777764 3457799999999999999999988887666532 1233221
Q ss_pred ccccccccccceecceEEEEEccCCCCceEeeccCChhHHHHHHHHHHHHHHHhhhhccccCCCCCCCcccchhhHHHHH
Q 041608 156 SSLYVDFTLPYTEMGIGMIVPIDQSNNIWIFLKPLEPNLWLTTAALFLLTSFVMWIIERPVNDEFQGSRAHQFGMIFWYS 235 (448)
Q Consensus 156 R~~~vdFS~p~~~~~~~ilv~~~~~~~~~~fl~PF~~~vWl~i~~~~~~~~~~l~~~~r~~~~~~~~~~~~~~~~~~w~~ 235 (448)
|++.++||.||+..+..++.+..... ...++.|
T Consensus 94 r~~~~~fs~p~~~~~~~~v~~~~~~~----------------------------------~~~dL~g------------- 126 (243)
T PRK15007 94 REKQVLFTTPYYDNSALFVGQQGKYT----------------------------------SVDQLKG------------- 126 (243)
T ss_pred HhcccceecCccccceEEEEeCCCCC----------------------------------CHHHhCC-------------
Confidence 89999999999999887777654221 2355666
Q ss_pred HHHhhhcccccccccccchhhhhhhhhhhcccceeeecCCcHHhhhhcCCCCcccccccCCHHHHHHHhccCccCCceEE
Q 041608 236 FSTLVFSQREKLFSNLSKFVVIVWLFVLASMDNIGSQLGSVVPGALSNLNFKDSRLKKYNSTKEYANALSKESKNGGISA 315 (448)
Q Consensus 236 ~~~l~~q~~~~~~s~s~Ri~~~~W~~~~sSy~~v~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a 315 (448)
.++|+..|+...+++++. .++.+.+.+.+..+.+++|.+|+ +|+
T Consensus 127 -------------------------------~~Igv~~g~~~~~~l~~~-~~~~~~~~~~~~~~~~~~L~~gr----vDa 170 (243)
T PRK15007 127 -------------------------------KKVGVQNGTTHQKFIMDK-HPEITTVPYDSYQNAKLDLQNGR----IDA 170 (243)
T ss_pred -------------------------------CeEEEecCcHHHHHHHHh-CCCCeEEEcCCHHHHHHHHHcCC----CCE
Confidence 899999999988888643 44556677889999999996666 999
Q ss_pred EEcchhhHHHHHHcCCCceEEeCCC---ccCCCCCeeEEEecCCc-cHHHHHHHHHhHhhcCchhHHHHHhcc
Q 041608 316 IIDEMPYIKAFLAKYSAHYTLTAPK---NTNSTNGFGFVFQKGSS-LVHDISKAIARLREEGTLTKIENEWFI 384 (448)
Q Consensus 316 ~i~~~~~~~y~~~~~c~~l~~v~~~---~~~~~~~~~~a~~k~sp-l~~~in~~il~l~e~G~l~~l~~kw~~ 384 (448)
++.+...+.+++++.. .+..++.. ......+++++++++++ +++.||++|.++.++|.++++.+||+.
T Consensus 171 ~i~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ln~~l~~l~~~g~~~~i~~~w~~ 242 (243)
T PRK15007 171 VFGDTAVVTEWLKDNP-KLAAVGDKVTDKDYFGTGLGIAVRQGNTELQQKLNTALEKVKKDGTYETIYNKWFQ 242 (243)
T ss_pred EEeCHHHHHHHHhcCC-CceeecCcccccccCCcceEEEEeCCCHHHHHHHHHHHHHHHhCCcHHHHHHHhcC
Confidence 9999998888887765 45544432 00223457999999876 999999999999999999999999985
No 9
>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=99.79 E-value=6e-19 Score=162.00 Aligned_cols=205 Identities=22% Similarity=0.335 Sum_probs=159.3
Q ss_pred EEEEeccCCcccceecccCCCCCeeEEEehHHHHHHHHHHCCCcccEEEEecCC-----CCCCcC----C------cccc
Q 041608 95 LRIGVPVNGFKELVNAARDPQGTLIVEGICIDVFKSAIDSLTFEVPYEFIPFED-----ASGRMA----G------SSLY 159 (448)
Q Consensus 95 l~V~~~~~p~~p~~~~~~d~~~~~~~~G~~idll~~la~~l~f~~~~~~~~~~~-----~~g~~~----g------R~~~ 159 (448)
||||+. +.++||.+. +.+++..|+++|+++++++++|+++++...++.. .+|..+ + |.+.
T Consensus 1 l~V~~~-~~~~P~~~~----~~~~~~~G~~~dl~~~i~~~~g~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~ 75 (225)
T PF00497_consen 1 LRVGVD-EDYPPFSYI----DEDGEPSGIDVDLLRAIAKRLGIKIEFVPMPWSRLLEMLENGKADIIIGGLSITPERAKK 75 (225)
T ss_dssp EEEEEE-SEBTTTBEE----ETTSEEESHHHHHHHHHHHHHTCEEEEEEEEGGGHHHHHHTTSSSEEESSEB-BHHHHTT
T ss_pred CEEEEc-CCCCCeEEE----CCCCCEEEEhHHHHHHHHhhcccccceeeccccccccccccccccccccccccccccccc
Confidence 689995 346666765 4467899999999999999999998888776642 122222 2 8899
Q ss_pred ccccccceecceEEEEEccC--C-CCceEeeccCChhHHHHHHHHHHHHHHHhhhhccccCCCCCCCcccchhhHHHHHH
Q 041608 160 VDFTLPYTEMGIGMIVPIDQ--S-NNIWIFLKPLEPNLWLTTAALFLLTSFVMWIIERPVNDEFQGSRAHQFGMIFWYSF 236 (448)
Q Consensus 160 vdFS~p~~~~~~~ilv~~~~--~-~~~~~fl~PF~~~vWl~i~~~~~~~~~~l~~~~r~~~~~~~~~~~~~~~~~~w~~~ 236 (448)
++||.||+....+++++++. . ..+ .+..++.+
T Consensus 76 ~~~s~p~~~~~~~~~~~~~~~~~~~~~-------------------------------~~~~dl~~-------------- 110 (225)
T PF00497_consen 76 FDFSDPYYSSPYVLVVRKGDAPPIKTI-------------------------------KSLDDLKG-------------- 110 (225)
T ss_dssp EEEESESEEEEEEEEEETTSTCSTSSH-------------------------------SSGGGGTT--------------
T ss_pred ccccccccchhheeeeccccccccccc-------------------------------cchhhhcC--------------
Confidence 99999999999999999732 1 111 02346666
Q ss_pred HHhhhcccccccccccchhhhhhhhhhhcccceeeecCCcHHhhhhcCCCCcccccccCCHHHHHHHhccCccCCceEEE
Q 041608 237 STLVFSQREKLFSNLSKFVVIVWLFVLASMDNIGSQLGSVVPGALSNLNFKDSRLKKYNSTKEYANALSKESKNGGISAI 316 (448)
Q Consensus 237 ~~l~~q~~~~~~s~s~Ri~~~~W~~~~sSy~~v~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~ 316 (448)
.++|+..|+...+++++......+++.+.+.++++++|.+|+ +|++
T Consensus 111 ------------------------------~~i~~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~g~----~d~~ 156 (225)
T PF00497_consen 111 ------------------------------KRIGVVRGSSYADYLKQQYPSNINIVEVDSPEEALEALLSGR----IDAF 156 (225)
T ss_dssp ------------------------------SEEEEETTSHHHHHHHHHTHHTSEEEEESSHHHHHHHHHTTS----SSEE
T ss_pred ------------------------------cccccccchhHHHHhhhhccchhhhcccccHHHHHHHHhcCC----eeee
Confidence 899999999988888643222456678899999999996665 9999
Q ss_pred EcchhhHHHHHHcC-CCceEEeCCCccCCCCCeeEEEecCCc-cHHHHHHHHHhHhhcCchhHHHHHhccc
Q 041608 317 IDEMPYIKAFLAKY-SAHYTLTAPKNTNSTNGFGFVFQKGSS-LVHDISKAIARLREEGTLTKIENEWFID 385 (448)
Q Consensus 317 i~~~~~~~y~~~~~-c~~l~~v~~~~~~~~~~~~~a~~k~sp-l~~~in~~il~l~e~G~l~~l~~kw~~~ 385 (448)
+.+...+.|++++. .......... ....++++++.++.+ +++.||++|.+|.++|.++++.+||+++
T Consensus 157 i~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~l~~~~n~~i~~l~~~G~~~~i~~ky~g~ 225 (225)
T PF00497_consen 157 IVDESTAEYLLKRHPLENIVVIPPP--ISPSPVYFAVRKKNPELLEIFNKAIRELKQSGEIQKILKKYLGD 225 (225)
T ss_dssp EEEHHHHHHHHHHTTTCEEEEEEEE--EEEEEEEEEEETTTHHHHHHHHHHHHHHHHTTHHHHHHHHHHSS
T ss_pred eccchhhhhhhhhcccccccccccc--cccceeEEeecccccHHHHHHHHHHHHHHhCcHHHHHHHHHcCC
Confidence 99999999999987 3333333444 567788888888766 9999999999999999999999999863
No 10
>PRK15010 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional
Probab=99.78 E-value=8.2e-18 Score=158.97 Aligned_cols=210 Identities=16% Similarity=0.240 Sum_probs=155.2
Q ss_pred CCCeEEEEeccCCcccceecccCCCCCeeEEEehHHHHHHHHHHCCCcccEEEEecCC-----CCCCcCC----------
Q 041608 91 KINKLRIGVPVNGFKELVNAARDPQGTLIVEGICIDVFKSAIDSLTFEVPYEFIPFED-----ASGRMAG---------- 155 (448)
Q Consensus 91 ~~~~l~V~~~~~p~~p~~~~~~d~~~~~~~~G~~idll~~la~~l~f~~~~~~~~~~~-----~~g~~~g---------- 155 (448)
..++|+|++. +.++||.+. +.++++.|+++||++++|+++|.+++++..+++. ..|..+.
T Consensus 24 ~~~~l~v~~~-~~~pPf~~~----~~~g~~~G~~vdl~~~ia~~lg~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~e 98 (260)
T PRK15010 24 LPETVRIGTD-TTYAPFSSK----DAKGDFVGFDIDLGNEMCKRMQVKCTWVASDFDALIPSLKAKKIDAIISSLSITDK 98 (260)
T ss_pred cCCeEEEEec-CCcCCceeE----CCCCCEEeeeHHHHHHHHHHhCCceEEEeCCHHHHHHHHHCCCCCEEEecCcCCHH
Confidence 5689999997 457788774 3456799999999999999999988887766631 1222221
Q ss_pred ccccccccccceecceEEEEEccCCCCceEeeccCChhHHHHHHHHHHHHHHHhhhhccccCCCCCCCcccchhhHHHHH
Q 041608 156 SSLYVDFTLPYTEMGIGMIVPIDQSNNIWIFLKPLEPNLWLTTAALFLLTSFVMWIIERPVNDEFQGSRAHQFGMIFWYS 235 (448)
Q Consensus 156 R~~~vdFS~p~~~~~~~ilv~~~~~~~~~~fl~PF~~~vWl~i~~~~~~~~~~l~~~~r~~~~~~~~~~~~~~~~~~w~~ 235 (448)
|++.++||.||+.++.+++++++..... ...++.|
T Consensus 99 R~~~~~fs~p~~~~~~~~~~~~~~~~~~--------------------------------~~~dl~g------------- 133 (260)
T PRK15010 99 RQQEIAFSDKLYAADSRLIAAKGSPIQP--------------------------------TLDSLKG------------- 133 (260)
T ss_pred HHhhcccccceEeccEEEEEECCCCCCC--------------------------------ChhHcCC-------------
Confidence 9999999999999999999988432111 2245667
Q ss_pred HHHhhhcccccccccccchhhhhhhhhhhcccceeeecCCcHHhhhhcCC-CCcccccccCCHHHHHHHhccCccCCceE
Q 041608 236 FSTLVFSQREKLFSNLSKFVVIVWLFVLASMDNIGSQLGSVVPGALSNLN-FKDSRLKKYNSTKEYANALSKESKNGGIS 314 (448)
Q Consensus 236 ~~~l~~q~~~~~~s~s~Ri~~~~W~~~~sSy~~v~~~~~s~~~~~l~~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~~~~ 314 (448)
++||+..|+....++.... ....+.+.+.+.++.+++|.+|+ +|
T Consensus 134 -------------------------------~~Igv~~gs~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~gr----iD 178 (260)
T PRK15010 134 -------------------------------KHVGVLQGSTQEAYANETWRSKGVDVVAYANQDLVYSDLAAGR----LD 178 (260)
T ss_pred -------------------------------CEEEEecCchHHHHHHHhcccCCceEEecCCHHHHHHHHHcCC----cc
Confidence 8999999998877774321 12234566788889999996555 99
Q ss_pred EEEcchhhHHH-HHHcC-CCceEEeCCC---ccCCCCCeeEEEecCCc-cHHHHHHHHHhHhhcCchhHHHHHhccc
Q 041608 315 AIIDEMPYIKA-FLAKY-SAHYTLTAPK---NTNSTNGFGFVFQKGSS-LVHDISKAIARLREEGTLTKIENEWFID 385 (448)
Q Consensus 315 a~i~~~~~~~y-~~~~~-c~~l~~v~~~---~~~~~~~~~~a~~k~sp-l~~~in~~il~l~e~G~l~~l~~kw~~~ 385 (448)
+++.+...+.+ +.++. .+++...+.. +.+...+++++++++.+ |++.+|++|.+++++|.++++.+||++.
T Consensus 179 a~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~L~~~ln~~l~~l~~~G~~~~i~~ky~~~ 255 (260)
T PRK15010 179 AALQDEVAASEGFLKQPAGKDFAFAGPSVKDKKYFGDGTGVGLRKDDAELTAAFNKALGELRQDGTYDKMAKKYFDF 255 (260)
T ss_pred EEEeCcHHHHHHHHhCCCCCceEEecCccccccccCCceEEEEeCCCHHHHHHHHHHHHHHHhCCcHHHHHHHhcCC
Confidence 99999887765 34433 4456555443 00122346799999887 9999999999999999999999999975
No 11
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.77 E-value=3.5e-18 Score=194.37 Aligned_cols=214 Identities=10% Similarity=0.098 Sum_probs=164.8
Q ss_pred CCCCCCCCC-CCCeEEEEeccCCcccceecccCCCCCeeEEEehHHHHHHHHHHCCCcccEEEEecCC------CCCCcC
Q 041608 82 SAAIPEGGG-KINKLRIGVPVNGFKELVNAARDPQGTLIVEGICIDVFKSAIDSLTFEVPYEFIPFED------ASGRMA 154 (448)
Q Consensus 82 ~~~~p~~~~-~~~~l~V~~~~~p~~p~~~~~~d~~~~~~~~G~~idll~~la~~l~f~~~~~~~~~~~------~~g~~~ 154 (448)
.+..++.|. ++++|+|++. +.|+||.+. +.++++.||.+|++++|++++|.++++....+.. .+|..+
T Consensus 290 lt~~E~~wl~~~~~l~v~~~-~~~pP~~~~----d~~g~~~G~~~Dll~~i~~~~g~~~~~v~~~~~~~~~~~l~~g~~D 364 (1197)
T PRK09959 290 LTEHEKQWIKQHPDLKVLEN-PYSPPYSMT----DENGSVRGVMGDILNIITLQTGLNFSPITVSHNIHAGTQLNPGGWD 364 (1197)
T ss_pred CCHHHHHHHHHCCceEEEcC-CCCCCeeEE----CCCCcEeeehHHHHHHHHHHHCCeEEEEecCCHHHHHHHHHCCCce
Confidence 355667788 7889999998 678888886 4557799999999999999999864443332210 123322
Q ss_pred C---------ccccccccccceecceEEEEEccCCCCceEeeccCChhHHHHHHHHHHHHHHHhhhhccccCCCCCCCcc
Q 041608 155 G---------SSLYVDFTLPYTEMGIGMIVPIDQSNNIWIFLKPLEPNLWLTTAALFLLTSFVMWIIERPVNDEFQGSRA 225 (448)
Q Consensus 155 g---------R~~~vdFS~p~~~~~~~ilv~~~~~~~~~~fl~PF~~~vWl~i~~~~~~~~~~l~~~~r~~~~~~~~~~~ 225 (448)
- |.+.++||.||+.++.+++++++... . . ....|
T Consensus 365 ~i~~~~~t~~r~~~~~fs~py~~~~~~~v~~~~~~~-~--------------------------------~-~~~~g--- 407 (1197)
T PRK09959 365 IIPGAIYSEDRENNVLFAEAFITTPYVFVMQKAPDS-E--------------------------------Q-TLKKG--- 407 (1197)
T ss_pred EeecccCCccccccceeccccccCCEEEEEecCCCC-c--------------------------------c-ccccC---
Confidence 1 99999999999999999998764221 1 0 01135
Q ss_pred cchhhHHHHHHHHhhhcccccccccccchhhhhhhhhhhcccceeeecCCcHHhhhhcCCCCcccccccCCHHHHHHHhc
Q 041608 226 HQFGMIFWYSFSTLVFSQREKLFSNLSKFVVIVWLFVLASMDNIGSQLGSVVPGALSNLNFKDSRLKKYNSTKEYANALS 305 (448)
Q Consensus 226 ~~~~~~~w~~~~~l~~q~~~~~~s~s~Ri~~~~W~~~~sSy~~v~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~ 305 (448)
+++|++.|+...+++++ .++..+++.+++..+++++|.
T Consensus 408 -----------------------------------------~~vav~~g~~~~~~~~~-~~p~~~~~~~~~~~~~l~av~ 445 (1197)
T PRK09959 408 -----------------------------------------MKVAIPYYYELHSQLKE-MYPEVEWIKVDNASAAFHKVK 445 (1197)
T ss_pred -----------------------------------------CEEEEeCCcchHHHHHH-HCCCcEEEEcCCHHHHHHHHH
Confidence 89999999988888864 356678889999999999995
Q ss_pred cCccCCceEEEEcchhhHHHHHHcC-CCce-EEeCCCccCCCCCeeEEEecCCc-cHHHHHHHHHhHhhcCchhHHHHHh
Q 041608 306 KESKNGGISAIIDEMPYIKAFLAKY-SAHY-TLTAPKNTNSTNGFGFVFQKGSS-LVHDISKAIARLREEGTLTKIENEW 382 (448)
Q Consensus 306 ~~~~~~~~~a~i~~~~~~~y~~~~~-c~~l-~~v~~~~~~~~~~~~~a~~k~sp-l~~~in~~il~l~e~G~l~~l~~kw 382 (448)
+|+ +||++.+...+.|+++++ .+.+ ...... +....++|+++|+.| |++.+|++|..+.++ .++++.+||
T Consensus 446 ~G~----~Da~i~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~av~k~~~~L~~~lnk~l~~i~~~-~~~~i~~kW 518 (1197)
T PRK09959 446 EGE----LDALVATQLNSRYMIDHYYPNELYHFLIPG--VPNASLSFAFPRGEPELKDIINKALNAIPPS-EVLRLTEKW 518 (1197)
T ss_pred cCC----CCEEehhhHHHHHHHHhcccccceeeecCC--CCchheEEeeCCCCHHHHHHHHHHHHhCCHH-HHHHHHhhc
Confidence 555 999999999999999875 2233 333344 566789999999998 999999999999999 889999999
Q ss_pred cccC
Q 041608 383 FIDR 386 (448)
Q Consensus 383 ~~~~ 386 (448)
+...
T Consensus 519 ~~~~ 522 (1197)
T PRK09959 519 IKMP 522 (1197)
T ss_pred ccCC
Confidence 9753
No 12
>TIGR01096 3A0103s03R lysine-arginine-ornithine-binding periplasmic protein.
Probab=99.77 E-value=1.7e-17 Score=155.73 Aligned_cols=205 Identities=20% Similarity=0.387 Sum_probs=157.9
Q ss_pred CCeEEEEeccCCcccceecccCCCCCeeEEEehHHHHHHHHHHCCCcccEEEEecCC-----CCCCcCC----------c
Q 041608 92 INKLRIGVPVNGFKELVNAARDPQGTLIVEGICIDVFKSAIDSLTFEVPYEFIPFED-----ASGRMAG----------S 156 (448)
Q Consensus 92 ~~~l~V~~~~~p~~p~~~~~~d~~~~~~~~G~~idll~~la~~l~f~~~~~~~~~~~-----~~g~~~g----------R 156 (448)
.++|+|++. ..++||.+. +.+++++|+++|+++.+++.+|.+++++..++.. .+|..+. |
T Consensus 23 ~~~l~v~~~-~~~~P~~~~----~~~g~~~G~~~dl~~~i~~~lg~~~~~~~~~~~~~~~~l~~G~~D~~~~~~~~~~~r 97 (250)
T TIGR01096 23 EGSVRIGTE-TGYPPFESK----DANGKLVGFDVDLAKALCKRMKAKCKFVEQNFDGLIPSLKAKKVDAIMATMSITPKR 97 (250)
T ss_pred CCeEEEEEC-CCCCCceEE----CCCCCEEeehHHHHHHHHHHhCCeEEEEeCCHHHHHHHHhCCCcCEEEecCccCHHH
Confidence 379999996 456677764 3456799999999999999999887776655431 1222221 8
Q ss_pred cccccccccceecceEEEEEccCCCCceEeeccCChhHHHHHHHHHHHHHHHhhhhccccCCCCCCCcccchhhHHHHHH
Q 041608 157 SLYVDFTLPYTEMGIGMIVPIDQSNNIWIFLKPLEPNLWLTTAALFLLTSFVMWIIERPVNDEFQGSRAHQFGMIFWYSF 236 (448)
Q Consensus 157 ~~~vdFS~p~~~~~~~ilv~~~~~~~~~~fl~PF~~~vWl~i~~~~~~~~~~l~~~~r~~~~~~~~~~~~~~~~~~w~~~ 236 (448)
++.+.||.||+..+..++++++..... ...++.|
T Consensus 98 ~~~~~~s~p~~~~~~~~~~~~~~~~~~--------------------------------~~~dl~g-------------- 131 (250)
T TIGR01096 98 QKQIDFSDPYYATGQGFVVKKGSDLAK--------------------------------TLEDLDG-------------- 131 (250)
T ss_pred hhccccccchhcCCeEEEEECCCCcCC--------------------------------ChHHcCC--------------
Confidence 889999999999999999987432110 2345667
Q ss_pred HHhhhcccccccccccchhhhhhhhhhhcccceeeecCCcHHhhhhcCCCCcccccccCCHHHHHHHhccCccCCceEEE
Q 041608 237 STLVFSQREKLFSNLSKFVVIVWLFVLASMDNIGSQLGSVVPGALSNLNFKDSRLKKYNSTKEYANALSKESKNGGISAI 316 (448)
Q Consensus 237 ~~l~~q~~~~~~s~s~Ri~~~~W~~~~sSy~~v~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~ 316 (448)
+++|+..|+....++++......++..+.+.++++++|.+|+ +|++
T Consensus 132 ------------------------------~~i~~~~g~~~~~~l~~~~~~~~~~~~~~s~~~~~~~L~~g~----vD~~ 177 (250)
T TIGR01096 132 ------------------------------KTVGVQSGTTHEQYLKDYFKPGVDIVEYDSYDNANMDLKAGR----IDAV 177 (250)
T ss_pred ------------------------------CEEEEecCchHHHHHHHhccCCcEEEEcCCHHHHHHHHHcCC----CCEE
Confidence 899999999988888643211446677889999999996655 9999
Q ss_pred EcchhhHHHHHHcCC--CceEEeCCCccCCC-----CCeeEEEecCCc-cHHHHHHHHHhHhhcCchhHHHHHhc
Q 041608 317 IDEMPYIKAFLAKYS--AHYTLTAPKNTNST-----NGFGFVFQKGSS-LVHDISKAIARLREEGTLTKIENEWF 383 (448)
Q Consensus 317 i~~~~~~~y~~~~~c--~~l~~v~~~~~~~~-----~~~~~a~~k~sp-l~~~in~~il~l~e~G~l~~l~~kw~ 383 (448)
+.+...+.+++++.. +++.+++.. +.. ..++++++++++ |+..+|++|.+|.++|.++.+.+||+
T Consensus 178 v~~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~~~~~~~~~~~~~~~~l~~~ln~~l~~l~~~g~~~~i~~kw~ 250 (250)
T TIGR01096 178 FTDASVLAEGFLKPPNGKDFKFVGPS--VTDEKYFGDGYGIGLRKGDTELKAAFNKALAAIRADGTYQKISKKWF 250 (250)
T ss_pred EeCHHHHHHHHHhCCCCCceEEeccc--cccccccCCceEEEEeCCCHHHHHHHHHHHHHHHHCCcHHHHHHhhC
Confidence 999999999888753 247766554 332 248899999987 99999999999999999999999996
No 13
>PRK11917 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed
Probab=99.76 E-value=1.8e-17 Score=156.43 Aligned_cols=201 Identities=16% Similarity=0.273 Sum_probs=152.1
Q ss_pred CCCeEEEEeccCCcccceecccCCCCCeeEEEehHHHHHHHHHHC-CCcccEEEEecC--C-----CCCCcCC-------
Q 041608 91 KINKLRIGVPVNGFKELVNAARDPQGTLIVEGICIDVFKSAIDSL-TFEVPYEFIPFE--D-----ASGRMAG------- 155 (448)
Q Consensus 91 ~~~~l~V~~~~~p~~p~~~~~~d~~~~~~~~G~~idll~~la~~l-~f~~~~~~~~~~--~-----~~g~~~g------- 155 (448)
+.++|+||+. ++++||.+.+ ..++++.||++||++++|++| |..+++++.+.. . ..|.++.
T Consensus 36 ~~g~l~vg~~-~~~pP~~~~~---~~~g~~~G~~vdl~~~ia~~llg~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~ 111 (259)
T PRK11917 36 SKGQLIVGVK-NDVPHYALLD---QATGEIKGFEIDVAKLLAKSILGDDKKIKLVAVNAKTRGPLLDNGSVDAVIATFTI 111 (259)
T ss_pred hCCEEEEEEC-CCCCCceeee---CCCCceeEeeHHHHHHHHHHhcCCCccEEEEEcChhhHHHHHHCCCccEEEecccC
Confidence 6789999998 5777887631 234679999999999999995 765555555432 1 1233332
Q ss_pred ---ccccccccccceecceEEEEEccCCCCceEeeccCChhHHHHHHHHHHHHHHHhhhhccccCCCCCCCcccchhhHH
Q 041608 156 ---SSLYVDFTLPYTEMGIGMIVPIDQSNNIWIFLKPLEPNLWLTTAALFLLTSFVMWIIERPVNDEFQGSRAHQFGMIF 232 (448)
Q Consensus 156 ---R~~~vdFS~p~~~~~~~ilv~~~~~~~~~~fl~PF~~~vWl~i~~~~~~~~~~l~~~~r~~~~~~~~~~~~~~~~~~ 232 (448)
|++.++||.||+.++.+++++++.... +..++.|
T Consensus 112 t~eR~~~~~fs~py~~~~~~lvv~~~~~~~---------------------------------s~~dL~g---------- 148 (259)
T PRK11917 112 TPERKRIYNFSEPYYQDAIGLLVLKEKNYK---------------------------------SLADMKG---------- 148 (259)
T ss_pred ChhhhheeeeccCceeeceEEEEECCCCCC---------------------------------CHHHhCC----------
Confidence 999999999999999999999843211 3466778
Q ss_pred HHHHHHhhhcccccccccccchhhhhhhhhhhcccceeeecCCcHHhhhhcC---CCCcccccccCCHHHHHHHhccCcc
Q 041608 233 WYSFSTLVFSQREKLFSNLSKFVVIVWLFVLASMDNIGSQLGSVVPGALSNL---NFKDSRLKKYNSTKEYANALSKESK 309 (448)
Q Consensus 233 w~~~~~l~~q~~~~~~s~s~Ri~~~~W~~~~sSy~~v~~~~~s~~~~~l~~~---~~~~~~~~~~~~~~~~~~~l~~~~~ 309 (448)
++||+..|+..++.+.+. .....++..+++..+.+++|..|+
T Consensus 149 ----------------------------------~~V~v~~gs~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~Gr- 193 (259)
T PRK11917 149 ----------------------------------ANIGVAQAATTKKAIGEAAKKIGIDVKFSEFPDYPSIKAALDAKR- 193 (259)
T ss_pred ----------------------------------CeEEEecCCcHHHHHHHhhHhcCCceeEEecCCHHHHHHHHHcCC-
Confidence 899999999887765421 111234567888999999996655
Q ss_pred CCceEEEEcchhhHHHHHHcCCCceEEeCCCccCCCCCeeEEEecCCc-cHHHHHHHHHhHhhcCchhHHHHHhc
Q 041608 310 NGGISAIIDEMPYIKAFLAKYSAHYTLTAPKNTNSTNGFGFVFQKGSS-LVHDISKAIARLREEGTLTKIENEWF 383 (448)
Q Consensus 310 ~~~~~a~i~~~~~~~y~~~~~c~~l~~v~~~~~~~~~~~~~a~~k~sp-l~~~in~~il~l~e~G~l~~l~~kw~ 383 (448)
+||++.+...+.++.++. ..++++. +...+|+++++|+++ +++.+|+.|.++.. .+++|.+||-
T Consensus 194 ---vDa~~~d~~~~~~~~~~~---~~~~~~~--~~~~~~~~a~~k~~~~l~~~ln~~l~~~~~--~~~~i~~kw~ 258 (259)
T PRK11917 194 ---VDAFSVDKSILLGYVDDK---SEILPDS--FEPQSYGIVTKKDDPAFAKYVDDFVKEHKN--EIDALAKKWG 258 (259)
T ss_pred ---CcEEEecHHHHHHhhhcC---CeecCCc--CCCCceEEEEeCCCHHHHHHHHHHHHHHHH--HHHHHHHHhC
Confidence 999999988777666542 3556666 788899999999988 99999999999865 8999999994
No 14
>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=99.75 E-value=1.6e-17 Score=158.34 Aligned_cols=209 Identities=15% Similarity=0.159 Sum_probs=157.0
Q ss_pred CCCeEEEEeccCCcccceecccCCCCCeeEEEehHHHHHHHHHHCCCc-ccEEEEecCC-----CCCCcCC---------
Q 041608 91 KINKLRIGVPVNGFKELVNAARDPQGTLIVEGICIDVFKSAIDSLTFE-VPYEFIPFED-----ASGRMAG--------- 155 (448)
Q Consensus 91 ~~~~l~V~~~~~p~~p~~~~~~d~~~~~~~~G~~idll~~la~~l~f~-~~~~~~~~~~-----~~g~~~g--------- 155 (448)
..++|+|++.. ++||.+. +.++++.|+.+||++++++++|.+ ++++..+++. ..|..+.
T Consensus 31 ~~~~l~v~~~~--~pP~~~~----~~~g~~~G~~~dl~~~i~~~lg~~~~~~~~~~w~~~~~~l~~G~~Di~~~~~~~t~ 104 (275)
T TIGR02995 31 EQGFARIAIAN--EPPFTYV----GADGKVSGAAPDVARAIFKRLGIADVNASITEYGALIPGLQAGRFDAIAAGLFIKP 104 (275)
T ss_pred hCCcEEEEccC--CCCceeE----CCCCceecchHHHHHHHHHHhCCCceeeccCCHHHHHHHHHCCCcCEEeecccCCH
Confidence 66899999964 6677664 345678999999999999999986 5677777642 1232221
Q ss_pred -ccccccccccceecceEEEEEccCCCCceEeeccCChhHHHHHHHHHHHHHHHhhhhccccCCCC---CCCcccchhhH
Q 041608 156 -SSLYVDFTLPYTEMGIGMIVPIDQSNNIWIFLKPLEPNLWLTTAALFLLTSFVMWIIERPVNDEF---QGSRAHQFGMI 231 (448)
Q Consensus 156 -R~~~vdFS~p~~~~~~~ilv~~~~~~~~~~fl~PF~~~vWl~i~~~~~~~~~~l~~~~r~~~~~~---~~~~~~~~~~~ 231 (448)
|++.++||.||+.++.+++++++....+. +..++ .|
T Consensus 105 eR~~~~~fs~py~~~~~~~~~~~~~~~~i~-------------------------------~~~dl~~~~g--------- 144 (275)
T TIGR02995 105 ERCKQVAFTQPILCDAEALLVKKGNPKGLK-------------------------------SYKDIAKNPD--------- 144 (275)
T ss_pred HHHhccccccceeecceeEEEECCCCCCCC-------------------------------CHHHhccCCC---------
Confidence 99999999999999999999884322110 11222 24
Q ss_pred HHHHHHHhhhcccccccccccchhhhhhhhhhhcccceeeecCCcHHhhhhcCCCCcccccccCCHHHHHHHhccCccCC
Q 041608 232 FWYSFSTLVFSQREKLFSNLSKFVVIVWLFVLASMDNIGSQLGSVVPGALSNLNFKDSRLKKYNSTKEYANALSKESKNG 311 (448)
Q Consensus 232 ~w~~~~~l~~q~~~~~~s~s~Ri~~~~W~~~~sSy~~v~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 311 (448)
.+||+..|+...+++++.+++..+++.+++.++.+++|.+|+
T Consensus 145 -----------------------------------~~Igv~~g~~~~~~l~~~~~~~~~i~~~~~~~~~i~~L~~gr--- 186 (275)
T TIGR02995 145 -----------------------------------AKIAAPGGGTEEKLAREAGVKREQIIVVPDGQSGLKMVQDGR--- 186 (275)
T ss_pred -----------------------------------ceEEEeCCcHHHHHHHHcCCChhhEEEeCCHHHHHHHHHcCC---
Confidence 799999999999998766666557778899999999996666
Q ss_pred ceEEEEcchhhHHHHHHcC-CCceEEeCCCccCCC--CCeeEEEecCCc-cHHHHHHHHHhHhhcCchhHHHHHhccc
Q 041608 312 GISAIIDEMPYIKAFLAKY-SAHYTLTAPKNTNST--NGFGFVFQKGSS-LVHDISKAIARLREEGTLTKIENEWFID 385 (448)
Q Consensus 312 ~~~a~i~~~~~~~y~~~~~-c~~l~~v~~~~~~~~--~~~~~a~~k~sp-l~~~in~~il~l~e~G~l~~l~~kw~~~ 385 (448)
+|+++.+...+.+++++. -.++..+.... ..+ ..++++++++++ |++.||++|.++.++|.++++.+||--.
T Consensus 187 -vDa~i~d~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~l~~~~n~~l~~~~~sG~~~~i~~ky~~~ 262 (275)
T TIGR02995 187 -ADAYSLTVLTINDLASKAGDPNVEVLAPFK-DAPVRYYGGAAFRPEDKELRDAFNVELAKLKESGEFAKIIAPYGFS 262 (275)
T ss_pred -CCEEecChHHHHHHHHhCCCCCceeecCcc-CCccccceeEEECCCCHHHHHHHHHHHHHHHhChHHHHHHHHhCCC
Confidence 999999999999988764 22444443320 111 234888998876 9999999999999999999999999443
No 15
>PRK15437 histidine ABC transporter substrate-binding protein HisJ; Provisional
Probab=99.74 E-value=8.4e-17 Score=151.98 Aligned_cols=210 Identities=17% Similarity=0.246 Sum_probs=155.4
Q ss_pred CCCeEEEEeccCCcccceecccCCCCCeeEEEehHHHHHHHHHHCCCcccEEEEecCC-----CCCCcCC----------
Q 041608 91 KINKLRIGVPVNGFKELVNAARDPQGTLIVEGICIDVFKSAIDSLTFEVPYEFIPFED-----ASGRMAG---------- 155 (448)
Q Consensus 91 ~~~~l~V~~~~~p~~p~~~~~~d~~~~~~~~G~~idll~~la~~l~f~~~~~~~~~~~-----~~g~~~g---------- 155 (448)
..++|+|++. +.++||.+. +.++++.|+++|+++++++++|.+++++..|++. .+|..+.
T Consensus 24 ~~~~l~v~~~-~~~~P~~~~----~~~g~~~G~~vdi~~~ia~~lg~~i~~~~~pw~~~~~~l~~g~~D~~~~~~~~t~e 98 (259)
T PRK15437 24 IPQNIRIGTD-PTYAPFESK----NSQGELVGFDIDLAKELCKRINTQCTFVENPLDALIPSLKAKKIDAIMSSLSITEK 98 (259)
T ss_pred cCCeEEEEeC-CCCCCccee----CCCCCEEeeeHHHHHHHHHHcCCceEEEeCCHHHHHHHHHCCCCCEEEecCCCCHH
Confidence 4589999986 347777764 3456799999999999999999988888777642 2333332
Q ss_pred ccccccccccceecceEEEEEccCCCCceEeeccCChhHHHHHHHHHHHHHHHhhhhccccCCCCCCCcccchhhHHHHH
Q 041608 156 SSLYVDFTLPYTEMGIGMIVPIDQSNNIWIFLKPLEPNLWLTTAALFLLTSFVMWIIERPVNDEFQGSRAHQFGMIFWYS 235 (448)
Q Consensus 156 R~~~vdFS~p~~~~~~~ilv~~~~~~~~~~fl~PF~~~vWl~i~~~~~~~~~~l~~~~r~~~~~~~~~~~~~~~~~~w~~ 235 (448)
|++.++||.||+.++..++++++..... +..++.|
T Consensus 99 R~~~~~fs~p~~~~~~~~~~~~~~~~~~--------------------------------~~~dl~g------------- 133 (259)
T PRK15437 99 RQQEIAFTDKLYAADSRLVVAKNSDIQP--------------------------------TVESLKG------------- 133 (259)
T ss_pred HhhhccccchhhcCceEEEEECCCCCCC--------------------------------ChHHhCC-------------
Confidence 9999999999999999999988432111 2356677
Q ss_pred HHHhhhcccccccccccchhhhhhhhhhhcccceeeecCCcHHhhhhcCCC-CcccccccCCHHHHHHHhccCccCCceE
Q 041608 236 FSTLVFSQREKLFSNLSKFVVIVWLFVLASMDNIGSQLGSVVPGALSNLNF-KDSRLKKYNSTKEYANALSKESKNGGIS 314 (448)
Q Consensus 236 ~~~l~~q~~~~~~s~s~Ri~~~~W~~~~sSy~~v~~~~~s~~~~~l~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~~~~ 314 (448)
.+||+..|+..+.+++.... .+.+++.+.+..+.+++|.+|+ +|
T Consensus 134 -------------------------------~~Igv~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~L~~gr----vD 178 (259)
T PRK15437 134 -------------------------------KRVGVLQGTTQETFGNEHWAPKGIEIVSYQGQDNIYSDLTAGR----ID 178 (259)
T ss_pred -------------------------------CEEEEecCcHHHHHHHhhccccCceEEecCCHHHHHHHHHcCC----cc
Confidence 89999999988777754322 2345677888899999996665 99
Q ss_pred EEEcchhhHHH-HHHcC-CCceEEeCCC---ccCCCCCeeEEEecCCc-cHHHHHHHHHhHhhcCchhHHHHHhccc
Q 041608 315 AIIDEMPYIKA-FLAKY-SAHYTLTAPK---NTNSTNGFGFVFQKGSS-LVHDISKAIARLREEGTLTKIENEWFID 385 (448)
Q Consensus 315 a~i~~~~~~~y-~~~~~-c~~l~~v~~~---~~~~~~~~~~a~~k~sp-l~~~in~~il~l~e~G~l~~l~~kw~~~ 385 (448)
+++.+...+.+ +.++. -..+...+.. +.+...+++++++++.+ +++.+|++|.++.++|.++++.+||++.
T Consensus 179 ~~v~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~ia~~~~~~~l~~~~n~~l~~~~~~G~~~~i~~k~~~~ 255 (259)
T PRK15437 179 AAFQDEVAASEGFLKQPVGKDYKFGGPSVKDEKLFGVGTGMGLRKEDNELREALNKAFAEMRADGTYEKLAKKYFDF 255 (259)
T ss_pred EEEechHHHHHHHHhCCCCCceEEecCccccccccCcceEEEEeCCCHHHHHHHHHHHHHHHHCCcHHHHHHHhcCC
Confidence 99999877754 33332 2234433221 00333457899988876 9999999999999999999999999975
No 16
>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=99.67 E-value=1.7e-15 Score=141.85 Aligned_cols=199 Identities=13% Similarity=0.138 Sum_probs=138.8
Q ss_pred eEEEEeccCCcccceecccCCCCCeeEEEehHHHHHHHHHHCCCcccEEEEecCCC--------CCCcCC------cccc
Q 041608 94 KLRIGVPVNGFKELVNAARDPQGTLIVEGICIDVFKSAIDSLTFEVPYEFIPFEDA--------SGRMAG------SSLY 159 (448)
Q Consensus 94 ~l~V~~~~~p~~p~~~~~~d~~~~~~~~G~~idll~~la~~l~f~~~~~~~~~~~~--------~g~~~g------R~~~ 159 (448)
+|+||+. +.|+||.+. ++ .||++||+++||++||++++++...++.. +|..+. +.+.
T Consensus 1 ~l~vg~~-~~~pPf~~~----~~----~Gfdvdl~~~ia~~lg~~~~~~~~~~~~~~~~~~~L~~g~~Dii~~~~~t~~r 71 (246)
T TIGR03870 1 TLRVCAA-TKEAPYSTK----DG----SGFENKIAAALAAAMGRKVVFVWLAKPAIYLVRDGLDKKLCDVVLGLDTGDPR 71 (246)
T ss_pred CeEEEeC-CCCCCCccC----CC----CcchHHHHHHHHHHhCCCeEEEEeccchhhHHHHHHhcCCccEEEeCCCChHH
Confidence 4799998 678888873 22 69999999999999999877776665431 122221 5555
Q ss_pred ccccccceecceEEEEEccCCCCceEeeccCChhHHHHHHHHHHHHHHHhhhhccccC--CCCCCCcccchhhHHHHHHH
Q 041608 160 VDFTLPYTEMGIGMIVPIDQSNNIWIFLKPLEPNLWLTTAALFLLTSFVMWIIERPVN--DEFQGSRAHQFGMIFWYSFS 237 (448)
Q Consensus 160 vdFS~p~~~~~~~ilv~~~~~~~~~~fl~PF~~~vWl~i~~~~~~~~~~l~~~~r~~~--~~~~~~~~~~~~~~~w~~~~ 237 (448)
++||.||+.++.+++++++.....- +. .++.|
T Consensus 72 ~~fS~PY~~~~~~~v~~k~~~~~~~-------------------------------~~~d~~L~g--------------- 105 (246)
T TIGR03870 72 VLTTKPYYRSSYVFLTRKDRNLDIK-------------------------------SWNDPRLKK--------------- 105 (246)
T ss_pred HhcccCcEEeeeEEEEeCCCCCCCC-------------------------------Cccchhhcc---------------
Confidence 8999999999999999984331110 11 23667
Q ss_pred Hhhhcccccccccccchhhhhhhhhhhccc-ceeeecCCcHHhhhhcCCCC------cccccccC---------CHHHHH
Q 041608 238 TLVFSQREKLFSNLSKFVVIVWLFVLASMD-NIGSQLGSVVPGALSNLNFK------DSRLKKYN---------STKEYA 301 (448)
Q Consensus 238 ~l~~q~~~~~~s~s~Ri~~~~W~~~~sSy~-~v~~~~~s~~~~~l~~~~~~------~~~~~~~~---------~~~~~~ 301 (448)
+ ++|+..|++.+.++++.... ..++..+. +..+.+
T Consensus 106 -----------------------------~~~vgv~~gs~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 156 (246)
T TIGR03870 106 -----------------------------VSKIGVIFGSPAETMLKQIGRYEDNFAYLYSLVNFKSPRNQYTQIDPRKLV 156 (246)
T ss_pred -----------------------------CceEEEecCChHHHHHHhcCccccccccccccccccCcccccccCCHHHHH
Confidence 7 99999999999988753210 01111121 357789
Q ss_pred HHhccCccCCceEEEEcchhhHHHHHHcCCCceE--EeCCCc-----cCCCC--CeeEEEecCCc-cHHHHHHHHHhHhh
Q 041608 302 NALSKESKNGGISAIIDEMPYIKAFLAKYSAHYT--LTAPKN-----TNSTN--GFGFVFQKGSS-LVHDISKAIARLRE 371 (448)
Q Consensus 302 ~~l~~~~~~~~~~a~i~~~~~~~y~~~~~c~~l~--~v~~~~-----~~~~~--~~~~a~~k~sp-l~~~in~~il~l~e 371 (448)
++|..|+ +||++.+.+.+.+++.+....+. .+++.. ..... .++++++|+++ |++.||++|.+|.
T Consensus 157 ~aL~~Gr----vDa~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iav~k~~~~L~~~in~aL~~l~- 231 (246)
T TIGR03870 157 SEVATGK----ADLAVAFAPEVARYVKASPEPLRMTVIPDDATRSDGAKIPMQYDQSMGVRKDDTALLAEIDAALAKAK- 231 (246)
T ss_pred HHHHcCC----CCEEEeeHHhHHHHHHhCCCCceEEeccccccccCCCCcceeeEEEEEEccCCHHHHHHHHHHHHHhH-
Confidence 9996666 99999988887777765322233 233210 01111 36999999998 9999999999999
Q ss_pred cCchhHHHHHh
Q 041608 372 EGTLTKIENEW 382 (448)
Q Consensus 372 ~G~l~~l~~kw 382 (448)
|.+++|..+|
T Consensus 232 -~~~~~i~~~y 241 (246)
T TIGR03870 232 -PRIDAILKEE 241 (246)
T ss_pred -HHHHHHHHHc
Confidence 4899999998
No 17
>PRK10859 membrane-bound lytic transglycosylase F; Provisional
Probab=99.64 E-value=2.4e-15 Score=154.09 Aligned_cols=206 Identities=14% Similarity=0.205 Sum_probs=151.2
Q ss_pred CCCeEEEEeccCCcccceecccCCCCCeeEEEehHHHHHHHHHHCCCcccEEEE-ecCC-----CCCCcC----C-----
Q 041608 91 KINKLRIGVPVNGFKELVNAARDPQGTLIVEGICIDVFKSAIDSLTFEVPYEFI-PFED-----ASGRMA----G----- 155 (448)
Q Consensus 91 ~~~~l~V~~~~~p~~p~~~~~~d~~~~~~~~G~~idll~~la~~l~f~~~~~~~-~~~~-----~~g~~~----g----- 155 (448)
+.++|+|++..+|+..+. ++ +...||++||++++++++|.+++++.. +++. .+|..+ +
T Consensus 41 ~~g~LrVg~~~~P~~~~~------~~-~~~~G~~~DLl~~ia~~LGv~~e~v~~~~~~~ll~aL~~G~iDi~~~~lt~T~ 113 (482)
T PRK10859 41 ERGELRVGTINSPLTYYI------GN-DGPTGFEYELAKRFADYLGVKLEIKVRDNISQLFDALDKGKADLAAAGLTYTP 113 (482)
T ss_pred hCCEEEEEEecCCCeeEe------cC-CCcccHHHHHHHHHHHHhCCcEEEEecCCHHHHHHHHhCCCCCEEeccCcCCh
Confidence 678999999753332121 22 224899999999999999998777633 2221 123322 1
Q ss_pred -ccccccccccceecceEEEEEccCCCCceEeeccCChhHHHHHHHHHHHHHHHhhhhccccCCCCCCCcccchhhHHHH
Q 041608 156 -SSLYVDFTLPYTEMGIGMIVPIDQSNNIWIFLKPLEPNLWLTTAALFLLTSFVMWIIERPVNDEFQGSRAHQFGMIFWY 234 (448)
Q Consensus 156 -R~~~vdFS~p~~~~~~~ilv~~~~~~~~~~fl~PF~~~vWl~i~~~~~~~~~~l~~~~r~~~~~~~~~~~~~~~~~~w~ 234 (448)
|++.++||.||+....+++++++... . .+..++.|
T Consensus 114 eR~~~~~FS~Py~~~~~~lv~r~~~~~-i-------------------------------~~l~dL~G------------ 149 (482)
T PRK10859 114 ERLKQFRFGPPYYSVSQQLVYRKGQPR-P-------------------------------RSLGDLKG------------ 149 (482)
T ss_pred hhhccCcccCCceeeeEEEEEeCCCCC-C-------------------------------CCHHHhCC------------
Confidence 99999999999999999999874321 1 03456777
Q ss_pred HHHHhhhcccccccccccchhhhhhhhhhhcccceeeecCCcHHhhhhcC--CCCcccc--cccCCHHHHHHHhccCccC
Q 041608 235 SFSTLVFSQREKLFSNLSKFVVIVWLFVLASMDNIGSQLGSVVPGALSNL--NFKDSRL--KKYNSTKEYANALSKESKN 310 (448)
Q Consensus 235 ~~~~l~~q~~~~~~s~s~Ri~~~~W~~~~sSy~~v~~~~~s~~~~~l~~~--~~~~~~~--~~~~~~~~~~~~l~~~~~~ 310 (448)
++|++..|+.....+++. .++..++ ..+.+.++.+++|.+|+
T Consensus 150 --------------------------------k~I~V~~gS~~~~~L~~l~~~~p~i~~~~~~~~s~~e~l~aL~~G~-- 195 (482)
T PRK10859 150 --------------------------------GTLTVAAGSSHVETLQELKKKYPELSWEESDDKDSEELLEQVAEGK-- 195 (482)
T ss_pred --------------------------------CeEEEECCCcHHHHHHHHHHhCCCceEEecCCCCHHHHHHHHHCCC--
Confidence 899999999988877532 2233332 34578899999995555
Q ss_pred CceEEEEcchhhHHHHHHcCCCceEEeCCCccCCCCCeeEEEecC-Cc-cHHHHHHHHHhHhhcCchhHHHHHhcccC
Q 041608 311 GGISAIIDEMPYIKAFLAKYSAHYTLTAPKNTNSTNGFGFVFQKG-SS-LVHDISKAIARLREEGTLTKIENEWFIDR 386 (448)
Q Consensus 311 ~~~~a~i~~~~~~~y~~~~~c~~l~~v~~~~~~~~~~~~~a~~k~-sp-l~~~in~~il~l~e~G~l~~l~~kw~~~~ 386 (448)
+|+++.+...+.+...... ++.+.... ....+++++++|+ ++ |++.+|++|.++.++|.++++.+||++..
T Consensus 196 --iDa~v~d~~~~~~~~~~~p-~l~v~~~l--~~~~~~~~av~k~~~~~L~~~ln~~L~~i~~~G~l~~L~~kyfg~~ 268 (482)
T PRK10859 196 --IDYTIADSVEISLNQRYHP-ELAVAFDL--TDEQPVAWALPPSGDDSLYAALLDFFNQIKEDGTLARLEEKYFGHV 268 (482)
T ss_pred --CCEEEECcHHHHHHHHhCC-Cceeeeec--CCCceeEEEEeCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHhhhh
Confidence 9999999988776544444 57665555 5667899999994 55 99999999999999999999999999864
No 18
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.61 E-value=2.4e-15 Score=171.28 Aligned_cols=216 Identities=12% Similarity=0.091 Sum_probs=163.1
Q ss_pred CCCCCCCCC-CCCeEEEEeccCCcccceecccCCCCCeeEEEehHHHHHHHHHHCCCcccEEEE-ecCC-----CCCCcC
Q 041608 82 SAAIPEGGG-KINKLRIGVPVNGFKELVNAARDPQGTLIVEGICIDVFKSAIDSLTFEVPYEFI-PFED-----ASGRMA 154 (448)
Q Consensus 82 ~~~~p~~~~-~~~~l~V~~~~~p~~p~~~~~~d~~~~~~~~G~~idll~~la~~l~f~~~~~~~-~~~~-----~~g~~~ 154 (448)
.+..++.|. ++++|+||+. ++++|+.+. . +.++++.||.+|+++.||+.+|.++++... +++. ..|..+
T Consensus 44 lt~~e~~~l~~~~~l~vgv~-~~~~p~~~~-~--~~~g~~~G~~~D~l~~ia~~lG~~~e~v~~~~~~~~l~~l~~g~iD 119 (1197)
T PRK09959 44 LSNKELRWLASKKNLVIAVH-KSQTATLLH-T--DSQQRVRGINADYLNLLKRALNIKLTLREYADHQKAMDALEEGEVD 119 (1197)
T ss_pred CCHHHHHHHhhCCeEEEEec-CCCCCCcee-e--cCCCccceecHHHHHHHHHhcCCceEEEeCCCHHHHHHHHHcCCCc
Confidence 355566777 8899999998 344343322 1 346779999999999999999986555433 3321 123322
Q ss_pred C----------ccccccccccceecceEEEEEccCCCCceEeeccCChhHHHHHHHHHHHHHHHhhhhccccCCCCCCCc
Q 041608 155 G----------SSLYVDFTLPYTEMGIGMIVPIDQSNNIWIFLKPLEPNLWLTTAALFLLTSFVMWIIERPVNDEFQGSR 224 (448)
Q Consensus 155 g----------R~~~vdFS~p~~~~~~~ilv~~~~~~~~~~fl~PF~~~vWl~i~~~~~~~~~~l~~~~r~~~~~~~~~~ 224 (448)
- |.+.++||.||+.+...++++++.... ...+..+
T Consensus 120 l~~~~~~~~~~r~~~~~fs~py~~~~~~~v~~~~~~~~---------------------------------~~~~l~~-- 164 (1197)
T PRK09959 120 IVLSHLVASPPLNDDIAATKPLIITFPALVTTLHDSMR---------------------------------PLTSSKP-- 164 (1197)
T ss_pred EecCccccccccccchhcCCCccCCCceEEEeCCCCCC---------------------------------CcccccC--
Confidence 1 899999999999999999998833211 2345566
Q ss_pred ccchhhHHHHHHHHhhhcccccccccccchhhhhhhhhhhcccceeeecCCcHHhhhhcCCCCcccccccCCHHHHHHHh
Q 041608 225 AHQFGMIFWYSFSTLVFSQREKLFSNLSKFVVIVWLFVLASMDNIGSQLGSVVPGALSNLNFKDSRLKKYNSTKEYANAL 304 (448)
Q Consensus 225 ~~~~~~~~w~~~~~l~~q~~~~~~s~s~Ri~~~~W~~~~sSy~~v~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~l 304 (448)
++++++.|+....++++ .++..+++.|++..+++++|
T Consensus 165 ------------------------------------------~~i~~~~g~~~~~~~~~-~~p~~~i~~~~s~~~al~av 201 (1197)
T PRK09959 165 ------------------------------------------VNIARVANYPPDEVIHQ-SFPKATIISFTNLYQALASV 201 (1197)
T ss_pred ------------------------------------------eEEEEeCCCCCHHHHHH-hCCCCEEEeCCCHHHHHHHH
Confidence 88999999998888874 46778889999999999999
Q ss_pred ccCccCCceEEEEcchhhHHHHHHcC-CCceEEeCCCccCCCCCeeEEEecCCc-cHHHHHHHHHhHhhcCchhHHHHHh
Q 041608 305 SKESKNGGISAIIDEMPYIKAFLAKY-SAHYTLTAPKNTNSTNGFGFVFQKGSS-LVHDISKAIARLREEGTLTKIENEW 382 (448)
Q Consensus 305 ~~~~~~~~~~a~i~~~~~~~y~~~~~-c~~l~~v~~~~~~~~~~~~~a~~k~sp-l~~~in~~il~l~e~G~l~~l~~kw 382 (448)
..|+ +||++.+...+.|+++++ -.++.+++..+ .....++++++|+.| |.+.+|++|..+.++|.. .+.+||
T Consensus 202 ~~G~----~Da~i~~~~~~~~~i~~~~~~~l~~~~~~~-~~~~~~~~~~~~~~~~L~~~lnkal~~i~~~~~~-~i~~kW 275 (1197)
T PRK09959 202 SAGQ----NDYFIGSNIITSSMISRYFTHSLNVVKYYN-SPRQYNFFLTRKESVILNEVLNRFVDALTNEVRY-EVSQNW 275 (1197)
T ss_pred HcCC----CCEEEccHHHHHHHHhcccccceEEEeecc-CCCCceeEEEcCCcHHHHHHHHHHHHhCCHHHHH-HHHHhc
Confidence 5555 999999999999999875 33566654331 234456788999998 999999999999999887 999999
Q ss_pred ccc
Q 041608 383 FID 385 (448)
Q Consensus 383 ~~~ 385 (448)
+..
T Consensus 276 ~~~ 278 (1197)
T PRK09959 276 LDT 278 (1197)
T ss_pred cCC
Confidence 975
No 19
>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=99.61 E-value=3.9e-15 Score=141.31 Aligned_cols=220 Identities=11% Similarity=0.148 Sum_probs=148.0
Q ss_pred CCCeEEEEeccCCcccceecccCCCCCeeEEEehHHHHHHHHHHC-CCcccEEEEecCCC----CCC---------cCC-
Q 041608 91 KINKLRIGVPVNGFKELVNAARDPQGTLIVEGICIDVFKSAIDSL-TFEVPYEFIPFEDA----SGR---------MAG- 155 (448)
Q Consensus 91 ~~~~l~V~~~~~p~~p~~~~~~d~~~~~~~~G~~idll~~la~~l-~f~~~~~~~~~~~~----~g~---------~~g- 155 (448)
..++|++++.. |+||.+. ++++...|+..|+++++++.+ +++++++..||+.. .+. .+.
T Consensus 16 ~~~~l~~~~~~--~pPf~~~----~~~~~~~G~~~~i~~~i~~~~~~~~~~~~~~pw~r~l~~l~~~~d~~~~~~~~t~e 89 (268)
T TIGR02285 16 AKEAITWIVND--FPPFFIF----SGPSKGRGVFDVILQEIRRALPQYEHRFVRVSFARSLKELQGKGGVCTVNLLRTPE 89 (268)
T ss_pred ccceeEEEecc--cCCeeEe----CCCCCCCChHHHHHHHHHHHcCCCceeEEECCHHHHHHHHhcCCCeEEeeccCCcc
Confidence 44799999854 7777764 344567899999999999998 88888888787521 111 111
Q ss_pred cccccccccccee-cceEEEEEccCCCCceEeec-cCChhHHHHHHHHHHHHHHHhhhhccccCCCCCCCcccchhhHHH
Q 041608 156 SSLYVDFTLPYTE-MGIGMIVPIDQSNNIWIFLK-PLEPNLWLTTAALFLLTSFVMWIIERPVNDEFQGSRAHQFGMIFW 233 (448)
Q Consensus 156 R~~~vdFS~p~~~-~~~~ilv~~~~~~~~~~fl~-PF~~~vWl~i~~~~~~~~~~l~~~~r~~~~~~~~~~~~~~~~~~w 233 (448)
|++.++||.||+. ....++++++........-. |.++. ...++.|
T Consensus 90 R~~~~~Fs~P~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~----------------------~l~~l~g----------- 136 (268)
T TIGR02285 90 REKFLIFSDPTLRALPVGLVLRKELTAGVRDEQDGDVDLK----------------------KLLASKK----------- 136 (268)
T ss_pred hhhceeecCCccccCCceEEEccchhhhccccCCCCccHH----------------------HHhcCCC-----------
Confidence 9999999999975 57888888743211100000 00000 0112344
Q ss_pred HHHHHhhhcccccccccccchhhhhhhhhhhcccceeeecCCcH----HhhhhcCCCCc-ccccccCCHHHHHHHhccCc
Q 041608 234 YSFSTLVFSQREKLFSNLSKFVVIVWLFVLASMDNIGSQLGSVV----PGALSNLNFKD-SRLKKYNSTKEYANALSKES 308 (448)
Q Consensus 234 ~~~~~l~~q~~~~~~s~s~Ri~~~~W~~~~sSy~~v~~~~~s~~----~~~l~~~~~~~-~~~~~~~~~~~~~~~l~~~~ 308 (448)
.++|++.|+.. +.++++..... .++..+.+..+.+++|.+||
T Consensus 137 ---------------------------------~~vgv~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~Gr 183 (268)
T TIGR02285 137 ---------------------------------KRLGVIASRSYGQQIDDILSDSGYQHNTRIIGNAAMGNLFKMLEKGR 183 (268)
T ss_pred ---------------------------------eEEEEecceeccHHHHHHHHhCCcccceeeeccchHHHHHHHHHcCC
Confidence 78999887765 33444332211 23455677788899997666
Q ss_pred cCCceEEEEcchhhHHHHHHcC---CCceEEeCCCccCCCCCeeEEEecCC---ccHHHHHHHHHhHhhcCchhHHHHHh
Q 041608 309 KNGGISAIIDEMPYIKAFLAKY---SAHYTLTAPKNTNSTNGFGFVFQKGS---SLVHDISKAIARLREEGTLTKIENEW 382 (448)
Q Consensus 309 ~~~~~~a~i~~~~~~~y~~~~~---c~~l~~v~~~~~~~~~~~~~a~~k~s---pl~~~in~~il~l~e~G~l~~l~~kw 382 (448)
+|+++.+...+.|++++. ...+..+..........++++++|++ .+++.||++|.+|.++|.++++.+||
T Consensus 184 ----vD~~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~l~~~in~~L~~l~~dG~~~~i~~k~ 259 (268)
T TIGR02285 184 ----VNYTLAYPPEKTYYEELNNGALPPLKFLPVAGMPAHISVWVACPKTEWGRKVIADIDQALSELNVDPKYYKYFDRW 259 (268)
T ss_pred ----ccEEEeCcHHHHHHHHhccCCcCCeeEeecCCCccceEEEEEeCCCHHHHHHHHHHHHHHHHHhhCHHHHHHHHHh
Confidence 999999999999988743 22455443220012235899999974 39999999999999999999999999
Q ss_pred cccC
Q 041608 383 FIDR 386 (448)
Q Consensus 383 ~~~~ 386 (448)
++.+
T Consensus 260 ~~~~ 263 (268)
T TIGR02285 260 LSPE 263 (268)
T ss_pred CCHh
Confidence 9764
No 20
>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=99.59 E-value=4e-14 Score=131.31 Aligned_cols=199 Identities=16% Similarity=0.149 Sum_probs=142.1
Q ss_pred eEEEEeccCCcccceecccCCCCCeeEEEehHHHHHHHHHHCCCcccEEEEecCCC-------CCCcCC------ccccc
Q 041608 94 KLRIGVPVNGFKELVNAARDPQGTLIVEGICIDVFKSAIDSLTFEVPYEFIPFEDA-------SGRMAG------SSLYV 160 (448)
Q Consensus 94 ~l~V~~~~~p~~p~~~~~~d~~~~~~~~G~~idll~~la~~l~f~~~~~~~~~~~~-------~g~~~g------R~~~v 160 (448)
.|||++. +.|+||.+ ++ ..||++||++++++++|.+++++..++... .|..+. |.+.+
T Consensus 1 ~l~v~~~-~~~~P~~~------~~--~~G~~~el~~~i~~~~g~~i~~~~~~~~~~~~~~~l~~g~~Di~~~~~~r~~~~ 71 (232)
T TIGR03871 1 ALRVCAD-PNNLPFSN------EK--GEGFENKIAQLLADDLGLPLEYTWFPQRRGFVRNTLNAGRCDVVIGVPAGYEMV 71 (232)
T ss_pred CeEEEeC-CCCCCccC------CC--CCchHHHHHHHHHHHcCCceEEEecCcchhhHHHHHhcCCccEEEeccCccccc
Confidence 3788887 55677764 22 369999999999999999888877665311 233322 88889
Q ss_pred cccccceecceEEEEEccCCCCceEeeccCChhHHHHHHHHHHHHHHHhhhhccccCCC--CCCCcccchhhHHHHHHHH
Q 041608 161 DFTLPYTEMGIGMIVPIDQSNNIWIFLKPLEPNLWLTTAALFLLTSFVMWIIERPVNDE--FQGSRAHQFGMIFWYSFST 238 (448)
Q Consensus 161 dFS~p~~~~~~~ilv~~~~~~~~~~fl~PF~~~vWl~i~~~~~~~~~~l~~~~r~~~~~--~~~~~~~~~~~~~w~~~~~ 238 (448)
+||.||+..+.+++++++....+. +..+ +.|
T Consensus 72 ~fs~py~~~~~~lv~~~~~~~~~~-------------------------------~~~d~~l~g---------------- 104 (232)
T TIGR03871 72 LTTRPYYRSTYVFVTRKDSLLDVK-------------------------------SLDDPRLKK---------------- 104 (232)
T ss_pred cccCCcEeeeEEEEEeCCCccccc-------------------------------chhhhhhcC----------------
Confidence 999999999999999885322220 2233 566
Q ss_pred hhhcccccccccccchhhhhhhhhhhcccceeeecCCcHHhhhhcCCCCccccc---------ccCCHHHHHHHhccCcc
Q 041608 239 LVFSQREKLFSNLSKFVVIVWLFVLASMDNIGSQLGSVVPGALSNLNFKDSRLK---------KYNSTKEYANALSKESK 309 (448)
Q Consensus 239 l~~q~~~~~~s~s~Ri~~~~W~~~~sSy~~v~~~~~s~~~~~l~~~~~~~~~~~---------~~~~~~~~~~~l~~~~~ 309 (448)
.+||+..|+...+++++.++.. ++. ...+..+.+++|.+|+
T Consensus 105 ----------------------------~~V~v~~g~~~~~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~G~- 154 (232)
T TIGR03871 105 ----------------------------LRIGVFAGTPPAHWLARHGLVE-NVVGYSLFGDYRPESPPGRMVEDLAAGE- 154 (232)
T ss_pred ----------------------------CeEEEEcCChHHHHHHhcCccc-ccccccccccccccCCHHHHHHHHHcCC-
Confidence 8999999999988886544321 211 1336788999996655
Q ss_pred CCceEEEEcchhhHHHHHHcCCCceEEeCCCc----cCCCCCeeEEEecCCc-cHHHHHHHHHhHhhcCchhHHHHHhc
Q 041608 310 NGGISAIIDEMPYIKAFLAKYSAHYTLTAPKN----TNSTNGFGFVFQKGSS-LVHDISKAIARLREEGTLTKIENEWF 383 (448)
Q Consensus 310 ~~~~~a~i~~~~~~~y~~~~~c~~l~~v~~~~----~~~~~~~~~a~~k~sp-l~~~in~~il~l~e~G~l~~l~~kw~ 383 (448)
+||++.+...+.|++++.-..+.+..... .....+++++++++++ ++..+|++|.++.+ .+++|.+||-
T Consensus 155 ---~Da~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~n~~l~~~~~--~~~~i~~kyg 228 (232)
T TIGR03871 155 ---IDVAIVWGPIAGYFAKQAGPPLVVVPLLPEDGGIPFDYRIAMGVRKGDKAWKDELNAVLDRRQA--EIDAILREYG 228 (232)
T ss_pred ---cCEEEeccHHHHHHHHhCCCCceeeccccCCCCCCccceEEEEEecCCHHHHHHHHHHHHHHHH--HHHHHHHHcC
Confidence 99999998889888876422444433220 0123456888999877 99999999999864 7999999995
No 21
>COG0834 HisJ ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]
Probab=99.54 E-value=1.5e-13 Score=130.57 Aligned_cols=210 Identities=23% Similarity=0.363 Sum_probs=153.4
Q ss_pred CCCeEEEEeccCCcccceecccCCCCC-eeEEEehHHHHHHHHHHCCCc--ccEEEEecCC-----CCCCcCC-------
Q 041608 91 KINKLRIGVPVNGFKELVNAARDPQGT-LIVEGICIDVFKSAIDSLTFE--VPYEFIPFED-----ASGRMAG------- 155 (448)
Q Consensus 91 ~~~~l~V~~~~~p~~p~~~~~~d~~~~-~~~~G~~idll~~la~~l~f~--~~~~~~~~~~-----~~g~~~g------- 155 (448)
....++|++.....+||.+. +.. +++.||++|+++++++.++.. +++....++. ..|..+.
T Consensus 32 ~~~~~~v~~~~~~~~p~~~~----~~~~~~~~G~dvdl~~~ia~~l~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~ 107 (275)
T COG0834 32 ARGKLRVGTEATYAPPFEFL----DAKGGKLVGFDVDLAKAIAKRLGGDKKVEFVPVAWDGLIPALKAGKVDIIIAGMTI 107 (275)
T ss_pred hcCeEEEEecCCCCCCcccc----cCCCCeEEeeeHHHHHHHHHHhCCcceeEEeccchhhhhHHHhcCCcCEEEecccc
Confidence 45788899885233466654 333 489999999999999999875 3444434431 1222221
Q ss_pred ---ccccccccccceecceEEEEEccCCCCceEeeccCChhHHHHHHHHHHHHHHHhhhhccccCCCCCCCcccchhhHH
Q 041608 156 ---SSLYVDFTLPYTEMGIGMIVPIDQSNNIWIFLKPLEPNLWLTTAALFLLTSFVMWIIERPVNDEFQGSRAHQFGMIF 232 (448)
Q Consensus 156 ---R~~~vdFS~p~~~~~~~ilv~~~~~~~~~~fl~PF~~~vWl~i~~~~~~~~~~l~~~~r~~~~~~~~~~~~~~~~~~ 232 (448)
|.+.++||.||+..+..++++++..... .+..++.|
T Consensus 108 t~er~~~~~fs~py~~~~~~~~~~~~~~~~~-------------------------------~~~~DL~g---------- 146 (275)
T COG0834 108 TPERKKKVDFSDPYYYSGQVLLVKKDSDIGI-------------------------------KSLEDLKG---------- 146 (275)
T ss_pred CHHHhccccccccccccCeEEEEECCCCcCc-------------------------------CCHHHhCC----------
Confidence 8899999999999999999998433221 14567888
Q ss_pred HHHHHHhhhcccccccccccchhhhhhhhhhhcccceeeecCCc--HHhhhhcCCCCcccccccCCHHHHHHHhccCccC
Q 041608 233 WYSFSTLVFSQREKLFSNLSKFVVIVWLFVLASMDNIGSQLGSV--VPGALSNLNFKDSRLKKYNSTKEYANALSKESKN 310 (448)
Q Consensus 233 w~~~~~l~~q~~~~~~s~s~Ri~~~~W~~~~sSy~~v~~~~~s~--~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 310 (448)
+++|+..|++ ...... ...+...+..+++..+.++++..|+
T Consensus 147 ----------------------------------k~v~v~~gt~~~~~~~~~-~~~~~~~~~~~~~~~~~~~al~~Gr-- 189 (275)
T COG0834 147 ----------------------------------KKVGVQLGTTDEAEEKAK-KPGPNAKIVAYDSNAEALLALKNGR-- 189 (275)
T ss_pred ----------------------------------CEEEEEcCcchhHHHHHh-hccCCceEEeeCCHHHHHHHHHcCC--
Confidence 8999999999 444443 2233456788999999999996666
Q ss_pred CceEEEEcchhhHHHH--HHcCCCceEEeCCCccCCC-CCeeEEEecC--CccHHHHHHHHHhHhhcCchhHHHHHhccc
Q 041608 311 GGISAIIDEMPYIKAF--LAKYSAHYTLTAPKNTNST-NGFGFVFQKG--SSLVHDISKAIARLREEGTLTKIENEWFID 385 (448)
Q Consensus 311 ~~~~a~i~~~~~~~y~--~~~~c~~l~~v~~~~~~~~-~~~~~a~~k~--spl~~~in~~il~l~e~G~l~~l~~kw~~~ 385 (448)
+||++.|.+.+.++ ..+........... ... .+++++++|+ ..+++.+|++|.++.++|.++++.++|+..
T Consensus 190 --~Da~~~d~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~l~~~in~~l~~l~~~G~~~~i~~kw~~~ 265 (275)
T COG0834 190 --ADAVVSDSAVLAGLKLLKKNPGLYVLLVFP--GLSVEYLGIALRKGDDPELLEAVNKALKELKADGTLQKISDKWFGP 265 (275)
T ss_pred --ccEEEcchHhhhhhhhhhcCCCCceeeecc--CCCcceeEEEeccCCcHHHHHHHHHHHHHHHhCccHHHHHHHhcCc
Confidence 99999999999994 43333122333333 344 7899999999 469999999999999999999999999985
Q ss_pred C
Q 041608 386 R 386 (448)
Q Consensus 386 ~ 386 (448)
.
T Consensus 266 ~ 266 (275)
T COG0834 266 D 266 (275)
T ss_pred c
Confidence 3
No 22
>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=99.52 E-value=2.3e-13 Score=123.19 Aligned_cols=201 Identities=23% Similarity=0.393 Sum_probs=151.5
Q ss_pred EEEEeccCCcccceecccCCCCCeeEEEehHHHHHHHHHHCCCcccEEEEecCC-----CCCCcC---------C-cccc
Q 041608 95 LRIGVPVNGFKELVNAARDPQGTLIVEGICIDVFKSAIDSLTFEVPYEFIPFED-----ASGRMA---------G-SSLY 159 (448)
Q Consensus 95 l~V~~~~~p~~p~~~~~~d~~~~~~~~G~~idll~~la~~l~f~~~~~~~~~~~-----~~g~~~---------g-R~~~ 159 (448)
|+|++. +.++||.+. ++++++.|++.|+++.+++++|.++++...+... .+|..+ . |.+.
T Consensus 1 l~i~~~-~~~~p~~~~----~~~g~~~G~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~~~~~ 75 (218)
T cd00134 1 LTVGTA-GTYPPFSFR----DANGELTGFDVDLAKAIAKELGVKVKFVEVDWDGLITALKSGKVDLIAAGMTITPERAKQ 75 (218)
T ss_pred CEEecC-CCCCCeeEE----CCCCCEEeeeHHHHHHHHHHhCCeEEEEeCCHHHHHHHHhcCCcCEEeecCcCCHHHHhh
Confidence 577887 556666664 4667799999999999999999876666655321 122211 1 7778
Q ss_pred ccccccceecceEEEEEccCCCCceEeeccCChhHHHHHHHHHHHHHHHhhhhccccCCCCCCCcccchhhHHHHHHHHh
Q 041608 160 VDFTLPYTEMGIGMIVPIDQSNNIWIFLKPLEPNLWLTTAALFLLTSFVMWIIERPVNDEFQGSRAHQFGMIFWYSFSTL 239 (448)
Q Consensus 160 vdFS~p~~~~~~~ilv~~~~~~~~~~fl~PF~~~vWl~i~~~~~~~~~~l~~~~r~~~~~~~~~~~~~~~~~~w~~~~~l 239 (448)
+.|+.|+...+..++++++.... ...++.|
T Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~~---------------------------------~~~dl~g----------------- 105 (218)
T cd00134 76 VDFSDPYYKSGQVILVKKGSPIK---------------------------------SVKDLKG----------------- 105 (218)
T ss_pred ccCcccceeccEEEEEECCCCCC---------------------------------ChHHhCC-----------------
Confidence 99999999999999999843321 2356677
Q ss_pred hhcccccccccccchhhhhhhhhhhcccceeeecCCcHHhhhhcCCCCcccccccCCHHHHHHHhccCccCCceEEEEcc
Q 041608 240 VFSQREKLFSNLSKFVVIVWLFVLASMDNIGSQLGSVVPGALSNLNFKDSRLKKYNSTKEYANALSKESKNGGISAIIDE 319 (448)
Q Consensus 240 ~~q~~~~~~s~s~Ri~~~~W~~~~sSy~~v~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~i~~ 319 (448)
+++++..|+....++.+.. ....+..+.+.++.++.+.+|+ +|+++.+
T Consensus 106 ---------------------------~~i~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~g~----~d~~~~~ 153 (218)
T cd00134 106 ---------------------------KKVAVQKGSTAEKYLKKAL-PEAKVVSYDDNAEALAALENGR----ADAVIVD 153 (218)
T ss_pred ---------------------------CEEEEEcCchHHHHHHHhC-CcccEEEeCCHHHHHHHHHcCC----ccEEEec
Confidence 8899988888877776442 2345677888999999996666 9999999
Q ss_pred hhhHHHHHHcC-CCceEEeCCCccCCCCCeeEEEecCCc-cHHHHHHHHHhHhhcCchhHHHHHhc
Q 041608 320 MPYIKAFLAKY-SAHYTLTAPKNTNSTNGFGFVFQKGSS-LVHDISKAIARLREEGTLTKIENEWF 383 (448)
Q Consensus 320 ~~~~~y~~~~~-c~~l~~v~~~~~~~~~~~~~a~~k~sp-l~~~in~~il~l~e~G~l~~l~~kw~ 383 (448)
.....+..++. + .++++..........++++..++++ +...++++|.+++++|.++.+.+||+
T Consensus 154 ~~~~~~~~~~~~~-~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~~~~~~g~~~~i~~~~~ 218 (218)
T cd00134 154 EIALAALLKKHPP-ELKIVGPSIDLEPLGFGVAVGKDNKELLDAVNKALKELRADGELKKISKKWF 218 (218)
T ss_pred cHHHHHHHHhcCC-CcEEeccccCCCccceEEEEcCCCHHHHHHHHHHHHHHHhCccHHHHHHhhC
Confidence 99999888776 5 6776665300455566777777775 99999999999999999999999996
No 23
>smart00062 PBPb Bacterial periplasmic substrate-binding proteins. bacterial proteins, eukaryotic ones are in PBPe
Probab=99.50 E-value=5.7e-13 Score=120.36 Aligned_cols=200 Identities=25% Similarity=0.463 Sum_probs=153.2
Q ss_pred eEEEEeccCCcccceecccCCCCCeeEEEehHHHHHHHHHHCCCcccEEEEecCC-----CCCCcCC----------ccc
Q 041608 94 KLRIGVPVNGFKELVNAARDPQGTLIVEGICIDVFKSAIDSLTFEVPYEFIPFED-----ASGRMAG----------SSL 158 (448)
Q Consensus 94 ~l~V~~~~~p~~p~~~~~~d~~~~~~~~G~~idll~~la~~l~f~~~~~~~~~~~-----~~g~~~g----------R~~ 158 (448)
+|+||+. +.++||... +.++.+.|+.+|+++.+.+++|+++++...++.. ..|..+. |.+
T Consensus 1 ~l~v~~~-~~~~p~~~~----~~~g~~~G~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~~~~ 75 (219)
T smart00062 1 TLRVGTN-GDYPPFSFA----DEDGELTGFDVDLAKAIAKELGLKVEFVEVSFDNLLTALKSGKIDVVAAGMTITPERAK 75 (219)
T ss_pred CEEEEec-CCCCCcEEE----CCCCCcccchHHHHHHHHHHhCCeEEEEeccHHHHHHHHHCCcccEEeccccCCHHHHh
Confidence 5789996 456666654 4556699999999999999999877766553321 1222221 666
Q ss_pred cccccccceecceEEEEEccCCCCceEeeccCChhHHHHHHHHHHHHHHHhhhhccccCCCCCCCcccchhhHHHHHHHH
Q 041608 159 YVDFTLPYTEMGIGMIVPIDQSNNIWIFLKPLEPNLWLTTAALFLLTSFVMWIIERPVNDEFQGSRAHQFGMIFWYSFST 238 (448)
Q Consensus 159 ~vdFS~p~~~~~~~ilv~~~~~~~~~~fl~PF~~~vWl~i~~~~~~~~~~l~~~~r~~~~~~~~~~~~~~~~~~w~~~~~ 238 (448)
.+.|+.|+...+..++++++.... +..++.|
T Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~~~---------------------------------~~~dL~g---------------- 106 (219)
T smart00062 76 QVDFSDPYYKSGQVILVRKDSPIK---------------------------------SLEDLKG---------------- 106 (219)
T ss_pred heeeccceeeceeEEEEecCCCCC---------------------------------ChHHhCC----------------
Confidence 789999999999999998743211 3466777
Q ss_pred hhhcccccccccccchhhhhhhhhhhcccceeeecCCcHHhhhhcCCCCcccccccCCHHHHHHHhccCccCCceEEEEc
Q 041608 239 LVFSQREKLFSNLSKFVVIVWLFVLASMDNIGSQLGSVVPGALSNLNFKDSRLKKYNSTKEYANALSKESKNGGISAIID 318 (448)
Q Consensus 239 l~~q~~~~~~s~s~Ri~~~~W~~~~sSy~~v~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~i~ 318 (448)
+++++..|+....++... .+..++..+.+..+.+++|.+|+ +|+++.
T Consensus 107 ----------------------------~~i~~~~g~~~~~~~~~~-~~~~~~~~~~~~~~~~~~l~~g~----~d~~~~ 153 (219)
T smart00062 107 ----------------------------KKVAVVAGTTGEELLKKL-YPEAKIVSYDSQAEALAALKAGR----ADAAVA 153 (219)
T ss_pred ----------------------------CEEEEecCccHHHHHHHh-CCCceEEEcCCHHHHHHHhhcCc----ccEEEe
Confidence 899999888888887644 23345667788889999995555 999999
Q ss_pred chhhHHHHHHcC--CCceEEeCCCccCCC-CCeeEEEecCCc-cHHHHHHHHHhHhhcCchhHHHHHhc
Q 041608 319 EMPYIKAFLAKY--SAHYTLTAPKNTNST-NGFGFVFQKGSS-LVHDISKAIARLREEGTLTKIENEWF 383 (448)
Q Consensus 319 ~~~~~~y~~~~~--c~~l~~v~~~~~~~~-~~~~~a~~k~sp-l~~~in~~il~l~e~G~l~~l~~kw~ 383 (448)
+.+.+.+...+. + .+.++... ... ..++++++++++ +.+.++++|.++.++|.++++.++|+
T Consensus 154 ~~~~~~~~~~~~~~~-~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~i~~~~~ 219 (219)
T smart00062 154 DAPALAALVKQHGLP-ELKIVGDP--LDTPEGYAFAVRKGDPELLDKINKALKELKADGTLKKIYEKWF 219 (219)
T ss_pred ccHHHHHHHHhcCCC-ceeeccCC--CCCCcceEEEEECCCHHHHHHHHHHHHHHHhCchHHHHHhccC
Confidence 999888887765 4 67777665 445 789999999997 99999999999999999999999985
No 24
>smart00079 PBPe Eukaryotic homologues of bacterial periplasmic substrate binding proteins. Prokaryotic homologues are represented by a separate alignment: PBPb
Probab=99.45 E-value=7.1e-13 Score=111.94 Aligned_cols=110 Identities=26% Similarity=0.369 Sum_probs=97.3
Q ss_pred cceeeecCCcHHhhhhcCCCCc----------ccccccCCHHHHHHHhccCccCCceEEEEcchhhHHHHHHcCCCceEE
Q 041608 267 DNIGSQLGSVVPGALSNLNFKD----------SRLKKYNSTKEYANALSKESKNGGISAIIDEMPYIKAFLAKYSAHYTL 336 (448)
Q Consensus 267 ~~v~~~~~s~~~~~l~~~~~~~----------~~~~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~y~~~~~c~~l~~ 336 (448)
.++|++.|++.+.+++....+. .++..+++..+++.+| ..|. ||++.|.+.+.|++++.| ++.+
T Consensus 14 ~~vgv~~gs~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l----~~g~-da~v~d~~~~~~~~~~~~-~~~~ 87 (134)
T smart00079 14 IEYGTIRGSSTLAFFKRSGNPEYSRMWNYMSASPSVFVKSYAEGVQRV----RVSN-YAFLMESTYLDYELSQNC-DLMT 87 (134)
T ss_pred ccceEecCchHHHHHHhCCChHHHHHHHHHHhCCCCCCCCHHHHHHHH----HcCC-CEEEeehHhHHHHHhCCC-CeEE
Confidence 5899999999999997543321 2566789999999999 6778 999999999999988778 7998
Q ss_pred eCCCccCCCCCeeEEEecCCccHHHHHHHHHhHhhcCchhHHHHHhcc
Q 041608 337 TAPKNTNSTNGFGFVFQKGSSLVHDISKAIARLREEGTLTKIENEWFI 384 (448)
Q Consensus 337 v~~~~~~~~~~~~~a~~k~spl~~~in~~il~l~e~G~l~~l~~kw~~ 384 (448)
++.. +...+|+++++||++|++.+|++|.+|.++|.++++.++|++
T Consensus 88 ~~~~--~~~~~~~ia~~k~~~l~~~vn~~l~~l~~~G~~~~l~~kw~~ 133 (134)
T smart00079 88 VGEN--FGRKGYGIAFPKGSPLRDDLSRAILKLSESGELQKLENKWWK 133 (134)
T ss_pred cCcc--cCCCceEEEecCCCHHHHHHHHHHHHHHhcCcHHHHHHhhcc
Confidence 9888 888999999999999999999999999999999999999986
No 25
>PF00060 Lig_chan: Ligand-gated ion channel; InterPro: IPR001320 The ability of synapses to modify their synaptic strength in response to activity is a fundamental property of the nervous system and may be an essential component of learning and memory. There are three classes of ionotropic glutamate receptor, namely NMDA (N-methyl-D-aspartate), AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazole-4-propionic acid) and kainate receptors. They are believed to play critical roles in synaptic plasticity. At many synapses in the brain, transient activation of NMDA receptors leads to a persistent modification in the strength of synaptic transmission mediated by AMPA receptors and kainate receptors can act as the induction trigger for long-term changes in synaptic transmission [].; GO: 0004970 ionotropic glutamate receptor activity, 0005234 extracellular-glutamate-gated ion channel activity, 0016020 membrane; PDB: 3FAT_A 3KFM_A 3KEI_A 3EN3_A 3EPE_B 3FAS_A 2F34_A 3C34_B 3S2V_A 3GBB_B ....
Probab=99.16 E-value=5.2e-12 Score=108.57 Aligned_cols=76 Identities=26% Similarity=0.479 Sum_probs=52.5
Q ss_pred ChhHHHHHHHHHHHHHHHhhhhccccCCCCCC-------CcccchhhHHHHHHHHhhhccc-ccccccccchhhhhhhhh
Q 041608 191 EPNLWLTTAALFLLTSFVMWIIERPVNDEFQG-------SRAHQFGMIFWYSFSTLVFSQR-EKLFSNLSKFVVIVWLFV 262 (448)
Q Consensus 191 ~~~vWl~i~~~~~~~~~~l~~~~r~~~~~~~~-------~~~~~~~~~~w~~~~~l~~q~~-~~~~s~s~Ri~~~~W~~~ 262 (448)
+++||++++++++++++++|++++..+.+++. ....++.+++|++++++++|+. ..|++.++|++.++||++
T Consensus 1 s~~vW~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~~s~s~Ril~~~w~l~ 80 (148)
T PF00060_consen 1 SWSVWLLILLSILLVSLVLWLFERFSPYEWRKNQSSPPRRWRFSLSNSFWYTFGTLLQQGSSIRPRSWSGRILLAFWWLF 80 (148)
T ss_dssp -HHHHHHHHHHHHHHHTTGGGT------------------HHHHHHHHHHHCCCCCHHHHH------HHHHHHHHHHHHH
T ss_pred CHhHHHHHHHHHHHHHHHHHHHHHHhhhhhccccccccccCcccHHHHHHHHHHhhccccccccccchHHHHHHHHHHHH
Confidence 58999999999999999999999987776654 1223789999999999998774 468999999999999998
Q ss_pred h----hcc
Q 041608 263 L----ASM 266 (448)
Q Consensus 263 ~----sSy 266 (448)
+ ++|
T Consensus 81 ~lil~~~Y 88 (148)
T PF00060_consen 81 SLILIASY 88 (148)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHH
Confidence 7 555
No 26
>COG4623 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]
Probab=98.93 E-value=6.4e-09 Score=98.06 Aligned_cols=203 Identities=13% Similarity=0.181 Sum_probs=146.2
Q ss_pred CCCeEEEEeccCCcccceecccCCCCCeeEEEehHHHHHHHHHHCCCcccEEEEecCCC--------CCCcC----C---
Q 041608 91 KINKLRIGVPVNGFKELVNAARDPQGTLIVEGICIDVFKSAIDSLTFEVPYEFIPFEDA--------SGRMA----G--- 155 (448)
Q Consensus 91 ~~~~l~V~~~~~p~~p~~~~~~d~~~~~~~~G~~idll~~la~~l~f~~~~~~~~~~~~--------~g~~~----g--- 155 (448)
..+.|||+|.+.|-.-| ..++...|++.++.+++|+.||.++ ++.+..+. +|..+ |
T Consensus 21 ~rGvLrV~tinsp~sy~-------~~~~~p~G~eYelak~Fa~yLgV~L--ki~~~~n~dqLf~aL~ng~~DL~Aagl~~ 91 (473)
T COG4623 21 ARGVLRVSTINSPLSYF-------EDKGGPTGLEYELAKAFADYLGVKL--KIIPADNIDQLFDALDNGNADLAAAGLLY 91 (473)
T ss_pred hcCeEEEEeecCcccee-------ccCCCccchhHHHHHHHHHHhCCeE--EEEecCCHHHHHHHHhCCCcceecccccC
Confidence 56899999998444222 3444567999999999999999754 44554321 12111 1
Q ss_pred ---ccccccccccceecceEEEEEcc-CCCCceEeeccCChhHHHHHHHHHHHHHHHhhhhccccCCCCCCCcccchhhH
Q 041608 156 ---SSLYVDFTLPYTEMGIGMIVPID-QSNNIWIFLKPLEPNLWLTTAALFLLTSFVMWIIERPVNDEFQGSRAHQFGMI 231 (448)
Q Consensus 156 ---R~~~vdFS~p~~~~~~~ilv~~~-~~~~~~~fl~PF~~~vWl~i~~~~~~~~~~l~~~~r~~~~~~~~~~~~~~~~~ 231 (448)
|.+.+.....|++.+..++.+++ ..+. +..++.|
T Consensus 92 ~~~~l~~~~~gP~y~svs~qlVyRkG~~Rp~---------------------------------~l~~L~g--------- 129 (473)
T COG4623 92 NSERLKNFQPGPTYYSVSQQLVYRKGQYRPR---------------------------------SLGQLKG--------- 129 (473)
T ss_pred ChhHhcccCCCCceecccHHHHhhcCCCCCC---------------------------------CHHHccC---------
Confidence 55555556668888899999883 3322 3455666
Q ss_pred HHHHHHHhhhcccccccccccchhhhhhhhhhhcccceeeecCCcHHhhhh---cCCCCcccccc--cCCHHHHHHHhcc
Q 041608 232 FWYSFSTLVFSQREKLFSNLSKFVVIVWLFVLASMDNIGSQLGSVVPGALS---NLNFKDSRLKK--YNSTKEYANALSK 306 (448)
Q Consensus 232 ~w~~~~~l~~q~~~~~~s~s~Ri~~~~W~~~~sSy~~v~~~~~s~~~~~l~---~~~~~~~~~~~--~~~~~~~~~~l~~ 306 (448)
..+-+..|+.....++ +..+|.-.... -...++.++.+.
T Consensus 130 -----------------------------------~~i~v~~gs~~~~~l~~lk~~kyP~l~~k~d~~~~~~dLle~v~- 173 (473)
T COG4623 130 -----------------------------------RQITVAKGSAHVEDLKLLKETKYPELIWKVDDKLGVEDLLEMVA- 173 (473)
T ss_pred -----------------------------------ceeeccCCcHHHHHHHHHHHhhcchhhhhhcccccHHHHHHHHh-
Confidence 6788888887766553 33444322222 234578899994
Q ss_pred CccCCceEEEEcchhhHHHHHHcCCCceEEeCCCccCCCCCeeEEEecCC--ccHHHHHHHHHhHhhcCchhHHHHHhcc
Q 041608 307 ESKNGGISAIIDEMPYIKAFLAKYSAHYTLTAPKNTNSTNGFGFVFQKGS--SLVHDISKAIARLREEGTLTKIENEWFI 384 (448)
Q Consensus 307 ~~~~~~~~a~i~~~~~~~y~~~~~c~~l~~v~~~~~~~~~~~~~a~~k~s--pl~~~in~~il~l~e~G~l~~l~~kw~~ 384 (448)
.|.+|..+.|+..+....+-++ +|.+.-+. ....+.+..+|.+. .|...++..+..+.|+|.++.+++||++
T Consensus 174 ---~Gkldytiads~~is~~q~i~P-~laVafd~--tde~~v~Wy~~~~dd~tL~a~ll~F~~~~~e~g~larleeky~g 247 (473)
T COG4623 174 ---EGKLDYTIADSVEISLFQRVHP-ELAVAFDL--TDEQPVAWYLPRDDDSTLSAALLDFLNEAKEDGLLARLEEKYLG 247 (473)
T ss_pred ---cCCcceeeeccHHHHHHHHhCc-cceeeeec--ccccCceeeccCCchHHHHHHHHHHHHHhhcchHHHHHHHHHhc
Confidence 4559999999999888777777 78887777 67789999999964 4999999999999999999999999997
Q ss_pred cC
Q 041608 385 DR 386 (448)
Q Consensus 385 ~~ 386 (448)
.-
T Consensus 248 H~ 249 (473)
T COG4623 248 HG 249 (473)
T ss_pred cc
Confidence 64
No 27
>PF10613 Lig_chan-Glu_bd: Ligated ion channel L-glutamate- and glycine-binding site; InterPro: IPR019594 This entry, sometimes called the S1 domain, is the luminal domain just upstream of the first, M1, transmembrane region of transmembrane ion-channel proteins, and binds L-glutamate and glycine [, ]. It is found in association with IPR001320 from INTERPRO. ; GO: 0004970 ionotropic glutamate receptor activity, 0005234 extracellular-glutamate-gated ion channel activity, 0016020 membrane; PDB: 4E0W_A 3S9E_A 3QXM_B 2F34_A 3C34_B 3S2V_A 3GBB_B 2F36_D 4E0X_A 1TXF_A ....
Probab=98.74 E-value=2.6e-09 Score=76.52 Aligned_cols=50 Identities=26% Similarity=0.465 Sum_probs=37.6
Q ss_pred cceecccC--C-CCCeeEEEehHHHHHHHHHHCCCcccEEEEecC-----CCCCCcCC
Q 041608 106 ELVNAARD--P-QGTLIVEGICIDVFKSAIDSLTFEVPYEFIPFE-----DASGRMAG 155 (448)
Q Consensus 106 p~~~~~~d--~-~~~~~~~G~~idll~~la~~l~f~~~~~~~~~~-----~~~g~~~g 155 (448)
||++.+.+ . .++.+++|||+||+++||+.|||+|++..+++. ..+|.|+|
T Consensus 1 Pfvm~~~~~~~~~g~~~~eGyciDll~~la~~l~F~y~i~~~~Dg~yG~~~~~g~W~G 58 (65)
T PF10613_consen 1 PFVMLKEDGENLTGNDRYEGYCIDLLEELAEELNFTYEIYLVPDGKYGSKNPNGSWNG 58 (65)
T ss_dssp TTBEE-TTSSGSBGGGGEESHHHHHHHHHHHHHT-EEEEEE-TTS--EEBETTSEBEH
T ss_pred CeEEEecCCcccCCCccEEEEHHHHHHHHHHHcCCeEEEEECCCCCCcCcCCCCcCcC
Confidence 44554444 1 678899999999999999999999999988764 24688876
No 28
>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=98.26 E-value=8.7e-06 Score=76.37 Aligned_cols=184 Identities=14% Similarity=0.060 Sum_probs=117.7
Q ss_pred CCCeEEEEeccCCcccceecccCCCCCeeEEEehHHHHHHHHHHCCCcccEEEEe-cCC-----CCCCcCC---------
Q 041608 91 KINKLRIGVPVNGFKELVNAARDPQGTLIVEGICIDVFKSAIDSLTFEVPYEFIP-FED-----ASGRMAG--------- 155 (448)
Q Consensus 91 ~~~~l~V~~~~~p~~p~~~~~~d~~~~~~~~G~~idll~~la~~l~f~~~~~~~~-~~~-----~~g~~~g--------- 155 (448)
..++|+||+. +.++|+. +.+...++.+.+++++|.+++++... +.. ..|.++-
T Consensus 30 ~~~~l~vg~~-~~~~~~~-----------~~~~~~~l~~~l~~~~g~~v~~~~~~~~~~~~~~l~~g~~Di~~~~~~~~~ 97 (254)
T TIGR01098 30 VPKELNFGIL-PGENASN-----------LTRRWEPLADYLEKKLGIKVQLFVATDYSAVIEAMRFGRVDIAWFGPSSYV 97 (254)
T ss_pred CCCceEEEEC-CCCCHHH-----------HHHHHHHHHHHHHHHhCCcEEEEeCCCHHHHHHHHHcCCccEEEECcHHHH
Confidence 3478999998 4454433 22446799999999999876654322 110 1222221
Q ss_pred ----ccccccccccceec------ceEEEEEccCCCCceEeeccCChhHHHHHHHHHHHHHHHhhhhccccCCCCCCCcc
Q 041608 156 ----SSLYVDFTLPYTEM------GIGMIVPIDQSNNIWIFLKPLEPNLWLTTAALFLLTSFVMWIIERPVNDEFQGSRA 225 (448)
Q Consensus 156 ----R~~~vdFS~p~~~~------~~~ilv~~~~~~~~~~fl~PF~~~vWl~i~~~~~~~~~~l~~~~r~~~~~~~~~~~ 225 (448)
|....+|+.||... ...++++++.... +..++.|
T Consensus 98 ~~~~~~~~~~~~~~~~~~~~~~~~~~~lvv~~d~~i~---------------------------------~~~dL~g--- 141 (254)
T TIGR01098 98 LAHYRANAEVFALTAVSTDGSPGYYSVIIVKADSPIK---------------------------------SLKDLKG--- 141 (254)
T ss_pred HHHHhcCCceEEeeccccCCCCceEEEEEEECCCCCC---------------------------------ChHHhcC---
Confidence 45567888876643 2467777743211 3466777
Q ss_pred cchhhHHHHHHHHhhhcccccccccccchhhhhhhhhhhcccceeeec-CCcH-----Hhhhhc-CCCCc----cccccc
Q 041608 226 HQFGMIFWYSFSTLVFSQREKLFSNLSKFVVIVWLFVLASMDNIGSQL-GSVV-----PGALSN-LNFKD----SRLKKY 294 (448)
Q Consensus 226 ~~~~~~~w~~~~~l~~q~~~~~~s~s~Ri~~~~W~~~~sSy~~v~~~~-~s~~-----~~~l~~-~~~~~----~~~~~~ 294 (448)
+++++.. ++.. ..++.+ .+... .++...
T Consensus 142 -----------------------------------------k~I~~~~~~s~~~~~~~~~~l~~~~~~~~~~~~~~i~~~ 180 (254)
T TIGR01098 142 -----------------------------------------KTFAFGDPASTSGYLVPRYQLKKEGGLDADGFFSEVVFS 180 (254)
T ss_pred -----------------------------------------CEEEeeCCCCccchHhHHHHHHHhcCCChHHhhhheeec
Confidence 8888864 3322 123332 22111 234445
Q ss_pred CCHHHHHHHhccCccCCceEEEEcchhhHHHHHHcCC---CceEEeCCCccCCCCCeeEEEecC-Cc-cHHHHHHHHHhH
Q 041608 295 NSTKEYANALSKESKNGGISAIIDEMPYIKAFLAKYS---AHYTLTAPKNTNSTNGFGFVFQKG-SS-LVHDISKAIARL 369 (448)
Q Consensus 295 ~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~y~~~~~c---~~l~~v~~~~~~~~~~~~~a~~k~-sp-l~~~in~~il~l 369 (448)
.+..+.+++|.+|+ +||.+.+.+.+..+.++.. ..+++++.. ....+++++++|+ .+ +++.+|++|..+
T Consensus 181 ~~~~~~~~al~~G~----~Da~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~i~~~l~~~ 254 (254)
T TIGR01098 181 GSHDASALAVANGK----VDAATNNSSAIGRLKKRGPSDMKKVRVIWKS--PLIPNDPIAVRKDLPPELKEKIRDAFLTL 254 (254)
T ss_pred CchHHHHHHHHcCC----CCeEEecHHHHHHHHHhCccchhheEEEEec--CCCCCCCEEEECCCCHHHHHHHHHHHhhC
Confidence 56778899995555 9999999988877776542 267888876 6667789999999 55 999999999864
No 29
>PRK00489 hisG ATP phosphoribosyltransferase; Reviewed
Probab=97.63 E-value=0.00016 Score=69.25 Aligned_cols=105 Identities=15% Similarity=0.172 Sum_probs=79.7
Q ss_pred cceeeecCCcHHhhhhcCCCCcccccccCCHHHHHHHhccCccCCceEEEEcchhhHHHHHHcCCCceEEeCCCccCCCC
Q 041608 267 DNIGSQLGSVVPGALSNLNFKDSRLKKYNSTKEYANALSKESKNGGISAIIDEMPYIKAFLAKYSAHYTLTAPKNTNSTN 346 (448)
Q Consensus 267 ~~v~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~y~~~~~c~~l~~v~~~~~~~~~ 346 (448)
+++++..+.....++++.+.. .+++.+.+..+. ++. .|..||++....+..++.++ +++.+ +. +...
T Consensus 114 k~ia~~~~~~~~~~l~~~gi~-~~iv~~~gs~ea--a~~----~G~aDaivd~~~~~~~l~~~---~L~~v-~~--~~~~ 180 (287)
T PRK00489 114 KRIATSYPNLTRRYLAEKGID-AEVVELSGAVEV--APR----LGLADAIVDVVSTGTTLRAN---GLKIV-EV--ILRS 180 (287)
T ss_pred CEEEEcCcHHHHHHHHHcCCc-eEEEECCCchhh--hhc----CCcccEEEeeHHHHHHHHHC---CCEEE-Ee--eeee
Confidence 899998888888888766552 355556655553 453 34599999877777776663 56777 45 6667
Q ss_pred CeeEEEec--CCc-cHHHHHHHHHhHhhcCchhHHHHHhcccC
Q 041608 347 GFGFVFQK--GSS-LVHDISKAIARLREEGTLTKIENEWFIDR 386 (448)
Q Consensus 347 ~~~~a~~k--~sp-l~~~in~~il~l~e~G~l~~l~~kw~~~~ 386 (448)
..+++.+| .+| .+..+|..+.+| +|.+..+..||+..+
T Consensus 181 ~~~li~~k~~~~~~~~~~i~~~l~~l--~g~l~a~~~k~~~~~ 221 (287)
T PRK00489 181 EAVLIARKGWLDPEKQEKIDQLLTRL--QGVLRARESKYLMMN 221 (287)
T ss_pred eEEEEEcccccChhHHHHHHHHHHHH--HHHHHhhceEEEEEe
Confidence 79999999 676 889999999999 599999999999864
No 30
>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=96.89 E-value=0.0084 Score=57.34 Aligned_cols=81 Identities=12% Similarity=0.090 Sum_probs=56.7
Q ss_pred cccC-CHHHHHHHhccCccCCceEEEEcchhhHHHHHHcC-C---CceEEeCCCccCCCCCeeEEEecCC-c-cHHHHHH
Q 041608 292 KKYN-STKEYANALSKESKNGGISAIIDEMPYIKAFLAKY-S---AHYTLTAPKNTNSTNGFGFVFQKGS-S-LVHDISK 364 (448)
Q Consensus 292 ~~~~-~~~~~~~~l~~~~~~~~~~a~i~~~~~~~y~~~~~-c---~~l~~v~~~~~~~~~~~~~a~~k~s-p-l~~~in~ 364 (448)
+.+. +..+.+++|..|+ +||.+.+...+..+.++. . .++++.... -.....+++++++- + +++.+++
T Consensus 171 v~~~~~~~~~~~al~~G~----vDa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~v~~ 244 (288)
T TIGR03431 171 VTFSGSHEAAILAVANGT----VDAATTNDENLDRMIRKGQPDAMEDLRIIWKS--PLIPNGPIVYRKDLPADLKAKIRK 244 (288)
T ss_pred heecCchHHHHHHHHcCC----CCeEeccHHHHHHHHHcCCCCchhheEEEEEc--CCCCCCcEEEeCCCCHHHHHHHHH
Confidence 3444 6788899995555 999999888777777642 1 235544332 12234678899994 4 9999999
Q ss_pred HHHhHhhcCchhHH
Q 041608 365 AIARLREEGTLTKI 378 (448)
Q Consensus 365 ~il~l~e~G~l~~l 378 (448)
+|.++.+++..+.+
T Consensus 245 ~l~~~~~~~~~~~~ 258 (288)
T TIGR03431 245 AFLNYHKTDKACFE 258 (288)
T ss_pred HHHhcCCCcHHHHH
Confidence 99999999665543
No 31
>cd06377 PBP1_iGluR_NMDA_NR3 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR3 subunit of NMDA receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR3 subunit of NMDA receptor family. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer composed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. Among NMDA receptor subtypes, the NR2B subunit containing receptors appear particularly important for pain perception; thus NR2B-selective antagonists may be useful in
Probab=95.40 E-value=0.0083 Score=59.32 Aligned_cols=42 Identities=14% Similarity=0.294 Sum_probs=33.6
Q ss_pred CccceeeeeeeeEEeeCCcc--cCCCCEEEEEecCCceEEEEEEcC
Q 041608 1 IINSRFTSLSGNFQLVDGKL--TSSGAFEIVNVIGKTLKRVGFWSP 44 (448)
Q Consensus 1 ~~~~~~~G~tg~~~f~~g~~--~~~~~~~i~~~~~~~~~~~g~W~~ 44 (448)
|++++++|+||+|.|++|+| +++ +++|++++.+. .....|..
T Consensus 321 Lknv~~eGlTG~I~F~~g~R~~~~~-~l~I~~L~~~~-~G~~~W~k 364 (382)
T cd06377 321 LANTSFDGRTGPVWVTGSSQVHSSR-HFKVWSLRRDP-VGQPTWTT 364 (382)
T ss_pred HHhCcccccceeEEEccCeeecccc-eEEEEEecccc-CCCccceE
Confidence 57899999999999977999 899 99999998753 22335643
No 32
>cd06365 PBP1_Pheromone_receptor Ligand-binding domain of the V2R phermone receptor, a member of the family C receptors within the G-protein coupled receptor superfamily. Ligand-binding domain of the V2R phermone receptor, a member of the family C receptors within the G-protein coupled receptor superfamily, which also includes the metabotropic glutamate receptor, the GABAb receptor, the calcium-sensing receptor (CaSR), the T1R taste receptor, and a small group of uncharacterized orphan receptors.
Probab=93.75 E-value=0.054 Score=55.72 Aligned_cols=44 Identities=27% Similarity=0.477 Sum_probs=35.8
Q ss_pred Cccceeeeeee-eEEe-eCCcccCCCCEEEEEecC--Cc---eEEEEEEcCCC
Q 041608 1 IINSRFTSLSG-NFQL-VDGKLTSSGAFEIVNVIG--KT---LKRVGFWSPIT 46 (448)
Q Consensus 1 ~~~~~~~G~tg-~~~f-~~g~~~~~~~~~i~~~~~--~~---~~~~g~W~~~~ 46 (448)
|++++|+|.+| .+.| ++|.+ .. .|+|+|++. .+ +.+||+|++..
T Consensus 404 l~~v~F~~~~g~~v~Fd~nGd~-~~-~YdI~n~q~~~~~~~~~~~VG~~~~~~ 454 (469)
T cd06365 404 LKNIQFKNPAGDEVNLNQKRKL-DT-EYDILNYWNFPQGLGLKVKVGEFSPQA 454 (469)
T ss_pred HHhccccCCCCCEEEecCCCCc-Cc-eeeEEEEEECCCCCEEEEEEEEEeCCC
Confidence 57999999999 5999 89997 45 899999973 22 58899996654
No 33
>cd06364 PBP1_CaSR Ligand-binding domain of the CaSR calcium-sensing receptor, which is a member of the family C receptors within the G-protein coupled receptor superfamily. Ligand-binding domain of the CaSR calcium-sensing receptor, which is a member of the family C receptors within the G-protein coupled receptor superfamily. CaSR provides feedback control of extracellular calcium homeostasis by responding sensitively to acute fluctuations in extracellular ionized Ca2+ concentration. This ligand-binding domain has homology to the bacterial leucine-isoleucine-valine binding protein (LIVBP) and a leucine binding protein (LBP). CaSR is widely expressed in mammalian tissues and is active in tissues that are not directly involved in extracellular calcium homeostasis. Moreover, CaSR responds to aromatic, aliphatic, and polar amino acids, but not to positively charged or branched chain amino acids, which suggests that changes in plasma amino acid levels are likely to modulate whole body calci
Probab=92.68 E-value=0.12 Score=53.63 Aligned_cols=44 Identities=23% Similarity=0.417 Sum_probs=35.9
Q ss_pred Cccceeeeeee-eEEe-eCCcccCCCCEEEEEecC---Cc---eEEEEEEcCCC
Q 041608 1 IINSRFTSLSG-NFQL-VDGKLTSSGAFEIVNVIG---KT---LKRVGFWSPIT 46 (448)
Q Consensus 1 ~~~~~~~G~tg-~~~f-~~g~~~~~~~~~i~~~~~---~~---~~~~g~W~~~~ 46 (448)
|++++|+|.+| .+.| ++|.. .. .|||+|++. .| +.+||.|++..
T Consensus 444 L~~v~F~~~~g~~v~Fd~~Gd~-~~-~YdI~n~q~~~~~~~~~~v~VG~~~~~~ 495 (510)
T cd06364 444 LRHLNFTDNMGEQVRFDEGGDL-VG-NYSIINWHLSPEDGSVVFKEVGYYNVYA 495 (510)
T ss_pred HHhcEEecCCCCEEEEecCCCC-cc-ceeEEEeeecCCCCcEEEEEEEEEcCCC
Confidence 68999999987 7999 88986 45 899999994 23 57899997653
No 34
>PF07885 Ion_trans_2: Ion channel; InterPro: IPR013099 This entry includes the two membrane helix type ion channels found in bacteria []. ; PDB: 1KKD_A 2A0L_A 1ORQ_C 3UKM_C 1LNQ_E 3OUS_A 3LDC_A 3LDD_A 3RBZ_A 3LDE_A ....
Probab=85.95 E-value=2.3 Score=31.64 Aligned_cols=39 Identities=13% Similarity=0.272 Sum_probs=30.9
Q ss_pred ccchhhHHHHHHHHhhhcc-cc-cccccccchhhhhhhhhh
Q 041608 225 AHQFGMIFWYSFSTLVFSQ-RE-KLFSNLSKFVVIVWLFVL 263 (448)
Q Consensus 225 ~~~~~~~~w~~~~~l~~q~-~~-~~~s~s~Ri~~~~W~~~~ 263 (448)
..++.+++|+++.++..-| ++ .|.+..+|++...+.+..
T Consensus 22 ~~~~~da~yfs~~t~tTvGyGDi~p~t~~gr~~~~~~~~~G 62 (79)
T PF07885_consen 22 KWSFIDALYFSFVTITTVGYGDIVPQTPAGRIFTIIYMLIG 62 (79)
T ss_dssp TTSHHHHHHHHHHHHTT---SSSSTSSHHHHHHHHHHHHHH
T ss_pred cCCHHHHHHHHHHHHhcccCCCccCCccchHHHHHHHHHHH
Confidence 4579999999999999866 65 688888999998887654
No 35
>PF12974 Phosphonate-bd: ABC transporter, phosphonate, periplasmic substrate-binding protein ; PDB: 3N5L_B 3QUJ_C 3P7I_A 3QK6_A 3S4U_A.
Probab=85.12 E-value=1.9 Score=39.89 Aligned_cols=110 Identities=11% Similarity=0.034 Sum_probs=66.8
Q ss_pred cceeeecCCcHH------hhh-hcCCCCcc---cccccCCHHHHHHHhccCccCCceEEEEcchhhHHHHHHcC---CCc
Q 041608 267 DNIGSQLGSVVP------GAL-SNLNFKDS---RLKKYNSTKEYANALSKESKNGGISAIIDEMPYIKAFLAKY---SAH 333 (448)
Q Consensus 267 ~~v~~~~~s~~~------~~l-~~~~~~~~---~~~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~y~~~~~---c~~ 333 (448)
+++++...++.. ..| ++.++... +.+...+..+.+++|.+|+ +||.+......+-+.... .++
T Consensus 106 k~v~~~~~~s~sg~l~~~~~L~~~~Gl~~~~~~~~~~~~~~~~~~~~l~~G~----~Da~~~~~~~~~~~~~~~~~~~~~ 181 (243)
T PF12974_consen 106 KRVAFPDPSSTSGYLIPRYELLREAGLDPGDDFKQVFVGSHDAVLEALLNGK----ADAAAIPSDAFERLEAEGPDIPSQ 181 (243)
T ss_dssp SEEEEE-TT-TTTTHHHHHHTCCCCT--HHHHSSEEEEE-HHHHHHHHHTTS----SSEEEEEHHHHHHHHHH-HHHHTT
T ss_pred CEEEEecCCccHHHHHHHHHHHHHcCCChhHceeEEEeCCHHHHHHHHHcCC----ccEEEEechhHHHHHHccCccccc
Confidence 778775444322 223 33444321 2234557788899996555 999998887777766542 446
Q ss_pred eEEeCCCccCCCCCeeEEEecCCc--cHHHHHHHHHhHhhcCchhHHHHHh
Q 041608 334 YTLTAPKNTNSTNGFGFVFQKGSS--LVHDISKAIARLREEGTLTKIENEW 382 (448)
Q Consensus 334 l~~v~~~~~~~~~~~~~a~~k~sp--l~~~in~~il~l~e~G~l~~l~~kw 382 (448)
++++... -......++..++-| .++.+-.+++.+.++-.-..+.+.+
T Consensus 182 ~rvl~~s--~~~p~~~~~~~~~~~~~~~~~l~~al~~~~~~~~~~~~l~~~ 230 (243)
T PF12974_consen 182 LRVLWTS--PPYPNWPLVASPDLPPELRQRLRDALLSLSKDPEGKAILDAF 230 (243)
T ss_dssp EEEEEEE--EEEE--EEEEETTS-HHHHHHHHHHHHHTTSSHHHHHHHHHT
T ss_pred EEEEEEe--CCCCCcEEEEeCCCCHHHHHHHHHHHHcCCCChhhHHHHHhc
Confidence 8877665 233455677777755 9999999999999864445555544
No 36
>PRK11553 alkanesulfonate transporter substrate-binding subunit; Provisional
Probab=82.51 E-value=7.7 Score=37.32 Aligned_cols=100 Identities=17% Similarity=0.135 Sum_probs=53.8
Q ss_pred cceeeecCCcHHhhhh----cCCCCcccc-cccCCHHHHHHHhccCccCCceEEEEcchhhHHHHHHcCCCceEEeCCCc
Q 041608 267 DNIGSQLGSVVPGALS----NLNFKDSRL-KKYNSTKEYANALSKESKNGGISAIIDEMPYIKAFLAKYSAHYTLTAPKN 341 (448)
Q Consensus 267 ~~v~~~~~s~~~~~l~----~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~y~~~~~c~~l~~v~~~~ 341 (448)
+++++..+++.+.++. +.+.+...+ ..+.+..+..++|.+|+ +||++...++......+.-.++...+..
T Consensus 130 k~I~~~~gs~~~~~l~~~l~~~g~~~~dv~~v~~~~~~~~~al~~G~----vDa~~~~ep~~~~~~~~~~~~~~~~~~~- 204 (314)
T PRK11553 130 HKVAFQKGSSSHNLLLRALRKAGLKFTDIQPTYLTPADARAAFQQGN----VDAWAIWDPYYSAALLQGGVRVLKDGTD- 204 (314)
T ss_pred CEEeecCCCcHHHHHHHHHHHcCCCHHHeEEEecChHHHHHHHHcCC----CCEEEEcCcHHHHHHhcCCcEEeecCcc-
Confidence 8899888877766553 334432222 23456677889995555 9999887777666555432133333333
Q ss_pred cCCCCCeeEEEecC--CccHHHHHHHHHhHhhc
Q 041608 342 TNSTNGFGFVFQKG--SSLVHDISKAIARLREE 372 (448)
Q Consensus 342 ~~~~~~~~~a~~k~--spl~~~in~~il~l~e~ 372 (448)
....+..+.+... ....+.+++.+..+.+.
T Consensus 205 -~~~~~~~~~~~~~~~~~~p~~v~~~l~a~~~A 236 (314)
T PRK11553 205 -LNQTGSFYLAARPYAEKNGAFIQQVLATLTEA 236 (314)
T ss_pred -cCcCceEEEEcHHHHHHCHHHHHHHHHHHHHH
Confidence 3333323333222 12444555555444443
No 37
>KOG1419 consensus Voltage-gated K+ channel KCNQ [Inorganic ion transport and metabolism]
Probab=82.26 E-value=1.8 Score=43.95 Aligned_cols=71 Identities=13% Similarity=0.327 Sum_probs=52.8
Q ss_pred hHHHHHHHHHHHHHHHhhhhccccCCCCCCCcccchhhHHHHHHHHhhhcc-cc-cccccccchhhhhhhhhh
Q 041608 193 NLWLTTAALFLLTSFVMWIIERPVNDEFQGSRAHQFGMIFWYSFSTLVFSQ-RE-KLFSNLSKFVVIVWLFVL 263 (448)
Q Consensus 193 ~vWl~i~~~~~~~~~~l~~~~r~~~~~~~~~~~~~~~~~~w~~~~~l~~q~-~~-~~~s~s~Ri~~~~W~~~~ 263 (448)
..|..-++.+++.++++|+.|+..+.+-.+..-.+..+++|+..-+++.-| |+ .|..+.||++++..-|+.
T Consensus 235 Tt~YIGFL~LIfsSflVYLaEKd~~~e~~n~~F~TyADALWWG~ITltTIGYGDk~P~TWlGr~laa~fslig 307 (654)
T KOG1419|consen 235 TTWYIGFLVLIFSSFLVYLAEKDAQGEGTNDEFPTYADALWWGVITLTTIGYGDKTPQTWLGRLLAACFSLIG 307 (654)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcccccccccccchhHHHHHHhhheeEEeeccCCcCcccchhHHHHHHHHHHH
Confidence 456666777888899999999875553333233378999999999998755 55 689999999998765443
No 38
>KOG1056 consensus Glutamate-gated metabotropic ion channel receptor subunit GRM2 and related subunits, G-protein coupled receptor superfamily [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=76.73 E-value=4 Score=44.48 Aligned_cols=48 Identities=25% Similarity=0.502 Sum_probs=38.9
Q ss_pred CccceeeeeeeeEEe-eCCcccCCCCEEEEEecCCc----eEEEEEEcCCCCCcc
Q 041608 1 IINSRFTSLSGNFQL-VDGKLTSSGAFEIVNVIGKT----LKRVGFWSPITRISK 50 (448)
Q Consensus 1 ~~~~~~~G~tg~~~f-~~g~~~~~~~~~i~~~~~~~----~~~~g~W~~~~g~~~ 50 (448)
|++++|.|..|.+.| ++|... . .|+|++.+..+ +.++|+|++...|.+
T Consensus 425 l~~vnF~~~~~~v~Fd~~gD~~-~-~y~I~~~~~~~~~~~y~~vg~w~~~~~l~i 477 (878)
T KOG1056|consen 425 LLNVNFTGPAGSVRFDENGDGP-G-RYDILNYQLTNGSYTYKEVGYWSEGLSLNI 477 (878)
T ss_pred hheeEEecCCCceeecCCCCCc-c-ceeEEEeeccCCCccceeeeeecccccccc
Confidence 578999999999999 777754 3 79999998655 689999988765444
No 39
>COG3221 PhnD ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=74.56 E-value=32 Score=33.07 Aligned_cols=73 Identities=8% Similarity=0.024 Sum_probs=55.0
Q ss_pred ccCC-HHHHHHHhccCccCCceEEEEcchhhHHHHHHcC-C---CceEEeCCCccCCCCCeeEEEecCCc--cHHHHHHH
Q 041608 293 KYNS-TKEYANALSKESKNGGISAIIDEMPYIKAFLAKY-S---AHYTLTAPKNTNSTNGFGFVFQKGSS--LVHDISKA 365 (448)
Q Consensus 293 ~~~~-~~~~~~~l~~~~~~~~~~a~i~~~~~~~y~~~~~-c---~~l~~v~~~~~~~~~~~~~a~~k~sp--l~~~in~~ 365 (448)
.+.. -++++.+|. +|++|+............... - ++++++... -...+..++++++-| +++.+-.+
T Consensus 181 ~~~G~H~~a~~aV~----nG~vDva~~~~~~~~~~~~~~~~~~~~~l~vi~~S--~~iP~~pi~vr~~L~~~~k~kl~~a 254 (299)
T COG3221 181 IFSGGHDAAVLAVA----NGQVDVAAVNSSARGLLKKAAPEGVAEKLRVIWKS--PLIPNDPIAVRSDLPADLKEKLRDA 254 (299)
T ss_pred eccChHHHHHHHHH----cCCceEEeccHHHHhhhhhcccccchhhceEEEec--CCCCCCCEEEeCCCCHHHHHHHHHH
Confidence 3444 678888994 555999888877776666654 2 378888777 455667788888865 99999999
Q ss_pred HHhHhh
Q 041608 366 IARLRE 371 (448)
Q Consensus 366 il~l~e 371 (448)
++.+.+
T Consensus 255 f~~l~~ 260 (299)
T COG3221 255 FLDLAK 260 (299)
T ss_pred HHhcCc
Confidence 999986
No 40
>PRK13718 conjugal transfer protein TrbE; Provisional
Probab=65.71 E-value=14 Score=27.29 Aligned_cols=41 Identities=17% Similarity=0.284 Sum_probs=31.2
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHhccccccCCCCCCC
Q 041608 407 NFGGLFLITGISLTLALVIFLLPSIYKKNAFWKEDPHESNR 447 (448)
Q Consensus 407 ~~~g~F~il~~g~~lallv~~~E~~~~~~~~~~~~~~~~~~ 447 (448)
.+..+|+|+..|..+.++.++.-.+-+.++...++..+.|+
T Consensus 43 ~l~a~~iI~~~gv~~~~ly~ffs~Ltkl~~~d~~ks~~~~~ 83 (84)
T PRK13718 43 MLAAVFVILYSGVLLFILYFFFSALTKLQKHDERKSDERNE 83 (84)
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHHHHHhcccccchhhcC
Confidence 46778888888888888888777777777777777666654
No 41
>cd06385 PBP1_NPR_A Ligand-binding domain of type A natriuretic peptide receptor. Ligand-binding domain of type A natriuretic peptide receptor (NPR-A). NPR-A is one of three known single membrane-spanning natriuretic peptide receptors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. NPR-A is highly expressed in kidney, adrenal, terminal ileum, adipose, aortic, and lung tissues. The rank order of NPR-A activation by natriuretic peptides is ANPBNPCNP. Single allele-inactivating mutations in the promoter of human NPR-A are associated with hypertension and heart failure.
Probab=65.35 E-value=5.6 Score=39.88 Aligned_cols=30 Identities=17% Similarity=0.407 Sum_probs=23.8
Q ss_pred CccceeeeeeeeEEe-eCCcccCCCCEEEEEec
Q 041608 1 IINSRFTSLSGNFQL-VDGKLTSSGAFEIVNVI 32 (448)
Q Consensus 1 ~~~~~~~G~tg~~~f-~~g~~~~~~~~~i~~~~ 32 (448)
|++++|+|+||++.| ++|.|. . .|.|+.++
T Consensus 345 l~~~~f~G~tG~v~fd~~G~r~-~-~~~~~~~~ 375 (405)
T cd06385 345 MWNRTFYGVTGFVKIDDNGDRE-T-DFALWDMT 375 (405)
T ss_pred hhCceEeeceeEEEEcCCCCEe-c-eeEEEEcc
Confidence 467899999999999 899984 4 56666554
No 42
>TIGR01729 taurine_ABC_bnd taurine ABC transporter, periplasmic binding protein. This model identifies a cluster of ABC transporter periplasmic substrate binding proteins, apparently specific for taurine. Transport systems for taurine (NH2-CH2-CH2-SO3H), sulfonates, and sulfate esters import sulfur when sulfate levels are low. The most closely related proteins outside this family are putative aliphatic sulfonate binding proteins (TIGR01728).
Probab=64.95 E-value=41 Score=31.95 Aligned_cols=99 Identities=14% Similarity=0.098 Sum_probs=54.0
Q ss_pred cceeeecCCcHHhh----hhcCCCCcccccc-cCCHHHHHHHhccCccCCceEEEEcchhhHHHHHHcCCCceEEeCCCc
Q 041608 267 DNIGSQLGSVVPGA----LSNLNFKDSRLKK-YNSTKEYANALSKESKNGGISAIIDEMPYIKAFLAKYSAHYTLTAPKN 341 (448)
Q Consensus 267 ~~v~~~~~s~~~~~----l~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~y~~~~~c~~l~~v~~~~ 341 (448)
+++|+..++..+.+ |+..+.....+.. .-...+...++.+|+ +||++...+......+... .+.......
T Consensus 101 K~Igv~~~s~~~~~l~~~L~~~Gl~~~dv~~v~~~~~~~~~al~~G~----vDa~~~~~p~~~~~~~~g~-~~~~~~~~~ 175 (300)
T TIGR01729 101 KNVAVPFVSTTHYSLLAALKHWKTDPREVNILNLKPPQIVAAWQRGD----IDAAYVWPPALSELLKSGK-VISDSEQVG 175 (300)
T ss_pred CEEEeCCCCcHHHHHHHHHHHcCCChhheEEEecCcHHHHHHHHcCC----cCEEEEecHHHHHHHhcCc-EEecchhcc
Confidence 89999887765543 3334443322221 234567888996555 9999988887765554421 111111110
Q ss_pred cCC-CCCeeEEEecC----Cc-cHHHHHHHHHhHh
Q 041608 342 TNS-TNGFGFVFQKG----SS-LVHDISKAIARLR 370 (448)
Q Consensus 342 ~~~-~~~~~~a~~k~----sp-l~~~in~~il~l~ 370 (448)
... ....+++++++ .| ....|.+++.+..
T Consensus 176 ~~~~~~~~~~~~~~~~~~~~p~~~~~~~~a~~~a~ 210 (300)
T TIGR01729 176 AWGAPTFDGWVVRKDFAEKNPEFVAAFTKVLADAY 210 (300)
T ss_pred ccCCCceeEEEECHHHHHHCHHHHHHHHHHHHHHH
Confidence 011 11235666554 55 7777777766643
No 43
>cd06363 PBP1_Taste_receptor Ligand-binding domain of the T1R taste receptor. Ligand-binding domain of the T1R taste receptor. The T1R is a member of the family C receptors within the G-protein coupled receptor superfamily, which also includes the metabotropic glutamate receptors, GABAb receptors, the calcium-sensing receptor (CaSR), the V2R pheromone receptors, and a small group of uncharacterized orphan receptors.
Probab=58.40 E-value=8.2 Score=38.80 Aligned_cols=31 Identities=19% Similarity=0.260 Sum_probs=25.4
Q ss_pred CccceeeeeeeeEEe-eCCcccCCCCEEEEEecC
Q 041608 1 IINSRFTSLSGNFQL-VDGKLTSSGAFEIVNVIG 33 (448)
Q Consensus 1 ~~~~~~~G~tg~~~f-~~g~~~~~~~~~i~~~~~ 33 (448)
|++++|+|++|++.| ++|.+ .. .++|+++..
T Consensus 349 L~~~~~~g~~g~i~fd~~G~~-~~-~~~i~~~~~ 380 (410)
T cd06363 349 LKKVNFTLLGQTVRFDENGDP-NF-GYDIVVWWW 380 (410)
T ss_pred HhccEEecCCcEEEeCCCCCC-cc-ceEEEEEEE
Confidence 467889999999999 88884 45 789988864
No 44
>PF14981 FAM165: FAM165 family
Probab=55.17 E-value=27 Score=22.87 Aligned_cols=33 Identities=18% Similarity=0.257 Sum_probs=27.1
Q ss_pred ccchhhHHHHHHHHHHHHHHHHHHHHHHHhccc
Q 041608 405 LTNFGGLFLITGISLTLALVIFLLPSIYKKNAF 437 (448)
Q Consensus 405 l~~~~g~F~il~~g~~lallv~~~E~~~~~~~~ 437 (448)
++++--++||+++-.++..+.|.+-.+|.+++.
T Consensus 3 L~~vPlLlYILaaKtlilClaFAgvK~yQ~krl 35 (51)
T PF14981_consen 3 LDNVPLLLYILAAKTLILCLAFAGVKMYQRKRL 35 (51)
T ss_pred hhhchHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence 567888999999988888888888888877654
No 45
>PF06716 DUF1201: Protein of unknown function (DUF1201); InterPro: IPR009591 This entry consists of several Beet yellows virus (BYV) putative membrane-binding proteins of around 54 residues in length. The function of this currently unknown.
Probab=52.22 E-value=39 Score=22.11 Aligned_cols=21 Identities=19% Similarity=0.406 Sum_probs=14.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHH
Q 041608 408 FGGLFLITGISLTLALVIFLL 428 (448)
Q Consensus 408 ~~g~F~il~~g~~lallv~~~ 428 (448)
+.-.|+.++.|++++++++++
T Consensus 4 vLRs~L~~~F~~lIC~Fl~~~ 24 (54)
T PF06716_consen 4 VLRSYLLLAFGFLICLFLFCL 24 (54)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 345677888888877776654
No 46
>PF15179 Myc_target_1: Myc target protein 1
Probab=51.53 E-value=23 Score=30.83 Aligned_cols=37 Identities=14% Similarity=0.233 Sum_probs=27.5
Q ss_pred CCCccccchhhHHHH-HHHHHHHHHHHHHHHHHHHhcc
Q 041608 400 PSSLSLTNFGGLFLI-TGISLTLALVIFLLPSIYKKNA 436 (448)
Q Consensus 400 ~~~l~l~~~~g~F~i-l~~g~~lallv~~~E~~~~~~~ 436 (448)
.+.++++++.-+|.+ +++|++++.+++++-.+..+||
T Consensus 13 ~~~f~~~~lIlaF~vSm~iGLviG~li~~LltwlSRRR 50 (197)
T PF15179_consen 13 LENFDWEDLILAFCVSMAIGLVIGALIWALLTWLSRRR 50 (197)
T ss_pred hhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 345678888888876 6789999999888766555444
No 47
>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=50.72 E-value=54 Score=30.97 Aligned_cols=88 Identities=17% Similarity=0.217 Sum_probs=55.0
Q ss_pred cccccCCHHHHHHHhccCccCCceEEEEcchhhHHHHHHc-CCCceEEeC--------CCccCCCCC---------eeEE
Q 041608 290 RLKKYNSTKEYANALSKESKNGGISAIIDEMPYIKAFLAK-YSAHYTLTA--------PKNTNSTNG---------FGFV 351 (448)
Q Consensus 290 ~~~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~y~~~~-~c~~l~~v~--------~~~~~~~~~---------~~~a 351 (448)
+.+.|..-.+.+.+|. .|.+|+.+.......-+++. .-.-|.+.+ +.+|+...+ .+++
T Consensus 134 ~~Vpy~G~~~~~~all----gG~vd~~~~~~~~~~~~~~~G~~k~Lav~~~~r~~~~pdvPT~~E~G~~d~~~~~~~g~~ 209 (274)
T PF03401_consen 134 THVPYDGGAEALTALL----GGHVDAAFGSPGEALPYVEAGDLKPLAVFSDERSPALPDVPTFKEQGYPDIVFGSWRGLF 209 (274)
T ss_dssp EEEE-SSHHHHHHHHH----TTSSSEEEEEHHHHHHHHHTTSEEEEEECSSS-BTTCTTS-BTTTTT-TTG--EEEEEEE
T ss_pred EEEEeCCccHHHHHHh----CCeeeEEeecHHHHHHHHhCCCceEEEEecCccccccCCCCCHHHhCccceeeeeeeeee
Confidence 5678999999999995 55599988775544444442 110122221 112233333 4889
Q ss_pred EecCCc--cHHHHHHHHHhHhhcCchhHHHHH
Q 041608 352 FQKGSS--LVHDISKAIARLREEGTLTKIENE 381 (448)
Q Consensus 352 ~~k~sp--l~~~in~~il~l~e~G~l~~l~~k 381 (448)
+|||-| .++.+..++.+..++-.+++..++
T Consensus 210 ~p~gtp~~~~~~l~~a~~~~~~~pe~~~~~~~ 241 (274)
T PF03401_consen 210 APKGTPDEIVDKLADAIKKALEDPEFQEFLEK 241 (274)
T ss_dssp EETTS-HHHHHHHHHHHHHHHT-HHHHHHHHH
T ss_pred cCCCCCHHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence 999987 999999999999998666555443
No 48
>cd06369 PBP1_GC_C_enterotoxin_receptor Ligand-binding domain of the membrane guanylyl cyclase C. Ligand-binding domain of the membrane guanylyl cyclase C (GC-C or StaR). StaR is a key receptor for the STa (Escherichia coli Heat Stable enterotoxin), a potent stimulant of intestinal chloride and bicarbonate secretion that cause acute secretory diarrhea. The catalytic domain of the STa/guanylin receptor type membrane GC is highly similar to those of the natriuretic peptide receptor (NPR) type and sensory organ-specific type membrane GCs (GC-D, GC-E and GC-F). The GC-C receptor is mainly expressed in the intestine of most vertebrates, but is also found in the kidney and other organs. Moreover, GC-C is activated by guanylin and uroguanylin, endogenous peptide ligands synthesized in the intestine and kidney. Consequently, the receptor activation results in increased cGMP levels and phosphorylation of the CFTR chloride channel and secretion.
Probab=43.03 E-value=34 Score=33.82 Aligned_cols=44 Identities=18% Similarity=0.205 Sum_probs=34.4
Q ss_pred CccceeeeeeeeEEe-eCCcccCCCCEEEEEec--CCceEEEEEEcCCC
Q 041608 1 IINSRFTSLSGNFQL-VDGKLTSSGAFEIVNVI--GKTLKRVGFWSPIT 46 (448)
Q Consensus 1 ~~~~~~~G~tg~~~f-~~g~~~~~~~~~i~~~~--~~~~~~~g~W~~~~ 46 (448)
++|.+|+|++|.+.+ ++|.|.. .|.++-+. ..+++.||..+...
T Consensus 320 m~NrTF~GitG~V~IDeNGDRd~--dfsLl~ms~~tg~y~vV~~y~t~~ 366 (380)
T cd06369 320 FRNISFEGAGGPYTLDEYGDRDV--NFTLLYTSTDTSKYKVLFEFDTST 366 (380)
T ss_pred HhCcceecCCCceEeCCCCCccC--ceEEEEeeCCCCCeEEEEEEECCC
Confidence 468899999999999 9999864 47776654 35688899987643
No 49
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=39.18 E-value=41 Score=23.96 Aligned_cols=29 Identities=7% Similarity=0.138 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhccccc
Q 041608 411 LFLITGISLTLALVIFLLPSIYKKNAFWK 439 (448)
Q Consensus 411 ~F~il~~g~~lallv~~~E~~~~~~~~~~ 439 (448)
++..+++|++++.++.....+..+++.++
T Consensus 24 il~~f~~G~llg~l~~~~~~~~~r~~~~~ 52 (68)
T PF06305_consen 24 ILIAFLLGALLGWLLSLPSRLRLRRRIRR 52 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555677777777777766655555544
No 50
>cd01324 cbb3_Oxidase_CcoQ Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. Found exclusively in proteobacteria, cbb3 is believed to be a modern enzyme that has evolved independently to perform a specialized function in microaerobic energy metabolism. The cbb3 operon contains four genes (ccoNOQP or fixNOQP), with ccoN coding for subunit I. Instead of a CuA-containing subunit II analogous to other cytochrome oxidases, cbb3 utilizes subunits ccoO and ccoP, which contain one and two hemes, respectively, to transfer electrons to the binuclear center. ccoQ, the fourth subunit, is a single transmembrane helix protein. It has been shown to protect the core complex from proteolytic degradation by serine proteases. See cd00919, cd01322
Probab=39.11 E-value=35 Score=22.80 Aligned_cols=29 Identities=14% Similarity=0.367 Sum_probs=22.4
Q ss_pred hhHHHHHHHHHHHHHHHhhhhccccCCCC
Q 041608 192 PNLWLTTAALFLLTSFVMWIIERPVNDEF 220 (448)
Q Consensus 192 ~~vWl~i~~~~~~~~~~l~~~~r~~~~~~ 220 (448)
.++|..+...++.+++++|.+...+.+.+
T Consensus 11 a~~~~l~~~~~~Figiv~wa~~p~~k~~f 39 (48)
T cd01324 11 ADSWGLLYLALFFLGVVVWAFRPGRKKAF 39 (48)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCCcchhH
Confidence 36888888889999999999976554433
No 51
>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=38.12 E-value=2.3e+02 Score=26.09 Aligned_cols=60 Identities=13% Similarity=0.102 Sum_probs=37.7
Q ss_pred cceeeecCCcHHhhh----hcCCCCcccc-cccCCHHHHHHHhccCccCCceEEEEcchhhHHHHHHcC
Q 041608 267 DNIGSQLGSVVPGAL----SNLNFKDSRL-KKYNSTKEYANALSKESKNGGISAIIDEMPYIKAFLAKY 330 (448)
Q Consensus 267 ~~v~~~~~s~~~~~l----~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~y~~~~~ 330 (448)
+++++..++.....+ ++.+.+...+ ..+.+..+..+++.+|+ +|+++...+....+..+.
T Consensus 102 k~i~~~~~~~~~~~~~~~l~~~G~~~~~v~~~~~~~~~~~~al~~g~----vda~~~~~p~~~~~~~~~ 166 (288)
T TIGR01728 102 KRIAVPKGGSGHDLLLRALLKAGLSGDDVTILYLGPSDARAAFAAGQ----VDAWAIWEPWGSALVEEG 166 (288)
T ss_pred CEEEecCCccHHHHHHHHHHHcCCCccceeEEecCcHHHHHHHHCCC----CCEEEeccchHhHHhhcc
Confidence 889887776554444 3344433222 22345667788995555 999998887776665544
No 52
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=37.44 E-value=21 Score=29.47 Aligned_cols=24 Identities=21% Similarity=0.234 Sum_probs=13.7
Q ss_pred hhHHHHHHHHHHHHHHHhhhhccc
Q 041608 192 PNLWLTTAALFLLTSFVMWIIERP 215 (448)
Q Consensus 192 ~~vWl~i~~~~~~~~~~l~~~~r~ 215 (448)
|-+|+.++++++++.++++++.|+
T Consensus 2 W~l~~iii~~i~l~~~~~~~~~rR 25 (130)
T PF12273_consen 2 WVLFAIIIVAILLFLFLFYCHNRR 25 (130)
T ss_pred eeeHHHHHHHHHHHHHHHHHHHHH
Confidence 456666666666555555555444
No 53
>KOG1055 consensus GABA-B ion channel receptor subunit GABABR1 and related subunits, G-protein coupled receptor superfamily [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=35.14 E-value=6 Score=42.22 Aligned_cols=45 Identities=16% Similarity=0.355 Sum_probs=34.1
Q ss_pred CccceeeeeeeeEEeeCCcccCCCCEEEEEecCCceEEEEEEcCCCC
Q 041608 1 IINSRFTSLSGNFQLVDGKLTSSGAFEIVNVIGKTLKRVGFWSPITR 47 (448)
Q Consensus 1 ~~~~~~~G~tg~~~f~~g~~~~~~~~~i~~~~~~~~~~~g~W~~~~g 47 (448)
+.+++|+|+||.+.|.+|.|.- .-+|-.+++..++++|+.+...+
T Consensus 388 mn~tsF~GvsG~V~F~~geR~a--~t~ieQ~qdg~y~k~g~Yds~~D 432 (865)
T KOG1055|consen 388 MNSTSFEGVSGHVVFSNGERMA--LTLIEQFQDGKYKKIGYYDSTKD 432 (865)
T ss_pred hhcccccccccceEecchhhHH--HHHHHHHhCCceEeecccccccc
Confidence 3578999999999995588763 34455567777889998877653
No 54
>PF04971 Lysis_S: Lysis protein S ; InterPro: IPR007054 The lysis S protein is a cytotoxic protein forming holes in membranes causing cell lysis. The action of Lysis S is independent of the proportion of acidic phospholipids in the membrane [].
Probab=34.85 E-value=47 Score=23.94 Aligned_cols=31 Identities=10% Similarity=-0.004 Sum_probs=20.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhcccccc
Q 041608 410 GLFLITGISLTLALVIFLLPSIYKKNAFWKE 440 (448)
Q Consensus 410 g~F~il~~g~~lallv~~~E~~~~~~~~~~~ 440 (448)
..++=++.|++++++.++.-+.++.|+.+|+
T Consensus 33 W~aIGvi~gi~~~~lt~ltN~YFK~k~drr~ 63 (68)
T PF04971_consen 33 WAAIGVIGGIFFGLLTYLTNLYFKIKEDRRK 63 (68)
T ss_pred chhHHHHHHHHHHHHHHHhHhhhhhhHhhhH
Confidence 3445566678888888888776666655554
No 55
>PF05545 FixQ: Cbb3-type cytochrome oxidase component FixQ; InterPro: IPR008621 This family consists of several Cbb3-type cytochrome oxidase components (FixQ/CcoQ). FixQ is found in nitrogen fixing bacteria. Since nitrogen fixation is an energy-consuming process, effective symbioses depend on operation of a respiratory chain with a high affinity for O2, closely coupled to ATP production. This requirement is fulfilled by a special three-subunit terminal oxidase (cytochrome terminal oxidase cbb3), which was first identified in Bradyrhizobium japonicum as the product of the fixNOQP operon [].
Probab=34.79 E-value=63 Score=21.52 Aligned_cols=27 Identities=19% Similarity=0.231 Sum_probs=10.9
Q ss_pred cchhhHHHHHHHHHHHHHHHHHHHHHH
Q 041608 406 TNFGGLFLITGISLTLALVIFLLPSIY 432 (448)
Q Consensus 406 ~~~~g~F~il~~g~~lallv~~~E~~~ 432 (448)
+.+.+....++.-+.+++++.++-+.+
T Consensus 4 ~~~~~~~~~~~~v~~~~~F~gi~~w~~ 30 (49)
T PF05545_consen 4 ETLQGFARSIGTVLFFVFFIGIVIWAY 30 (49)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444433333333333333334
No 56
>PHA02650 hypothetical protein; Provisional
Probab=34.78 E-value=60 Score=24.05 Aligned_cols=33 Identities=0% Similarity=0.084 Sum_probs=20.1
Q ss_pred ccCChhHHHHHHHHHHHHHHHhhhhccccCCCC
Q 041608 188 KPLEPNLWLTTAALFLLTSFVMWIIERPVNDEF 220 (448)
Q Consensus 188 ~PF~~~vWl~i~~~~~~~~~~l~~~~r~~~~~~ 220 (448)
.++.|..|+.++++.+++.++.++.-+..++.+
T Consensus 45 ~~~~~~~~ii~i~~v~i~~l~~flYLK~~~r~~ 77 (81)
T PHA02650 45 SWFNGQNFIFLIFSLIIVALFSFFVFKGYTRNL 77 (81)
T ss_pred CCchHHHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 567777777777666666666655544333333
No 57
>KOG3713 consensus Voltage-gated K+ channel KCNB/KCNC [Inorganic ion transport and metabolism]
Probab=33.58 E-value=28 Score=35.32 Aligned_cols=58 Identities=16% Similarity=0.284 Sum_probs=40.3
Q ss_pred HHHHHHHHhhhhccccCCCCCCCcccchhhHHHHHHHHhhhcc-cc-cccccccchhhhhhhhh
Q 041608 201 LFLLTSFVMWIIERPVNDEFQGSRAHQFGMIFWYSFSTLVFSQ-RE-KLFSNLSKFVVIVWLFV 262 (448)
Q Consensus 201 ~~~~~~~~l~~~~r~~~~~~~~~~~~~~~~~~w~~~~~l~~q~-~~-~~~s~s~Ri~~~~W~~~ 262 (448)
.+++.+.++|.+||-.+.. .-.++--++|+++-+|+.-| |+ .|++.+||++++.-.++
T Consensus 355 GI~iFStlvY~~Ek~~~~~----~FtSIPa~~WWaiVTMTTVGYGDm~P~T~~Gklvas~cil~ 414 (477)
T KOG3713|consen 355 GIVIFSTLVYFAEKDEPDT----KFTSIPAGFWWAVVTMTTVGYGDMVPVTVLGKLVASLCILC 414 (477)
T ss_pred HHHHHHHHHHHhhhcCCCC----CCccccchhheeeEEEeeecccCccccccchHHHHHHHHHH
Confidence 3445566678888754432 12257789999999998755 66 68999999998765444
No 58
>PHA03049 IMV membrane protein; Provisional
Probab=33.21 E-value=85 Score=22.43 Aligned_cols=23 Identities=13% Similarity=0.326 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHHHHHHHhccccc
Q 041608 417 ISLTLALVIFLLPSIYKKNAFWK 439 (448)
Q Consensus 417 ~g~~lallv~~~E~~~~~~~~~~ 439 (448)
++++++++.+++--+|.+.+...
T Consensus 8 ~iICVaIi~lIvYgiYnkk~~~q 30 (68)
T PHA03049 8 VIICVVIIGLIVYGIYNKKTTTS 30 (68)
T ss_pred HHHHHHHHHHHHHHHHhcccccC
Confidence 34555566666666676665554
No 59
>PF06679 DUF1180: Protein of unknown function (DUF1180); InterPro: IPR009565 This entry consists of several hypothetical eukaryotic proteins thought to be membrane proteins. Their function is unknown.
Probab=32.43 E-value=86 Score=27.09 Aligned_cols=31 Identities=10% Similarity=0.120 Sum_probs=22.9
Q ss_pred cchhhHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 041608 406 TNFGGLFLITGISLTLALVIFLLPSIYKKNA 436 (448)
Q Consensus 406 ~~~~g~F~il~~g~~lallv~~~E~~~~~~~ 436 (448)
.-+.-+||++++..+++++.|++..+..+++
T Consensus 92 ~~l~R~~~Vl~g~s~l~i~yfvir~~R~r~~ 122 (163)
T PF06679_consen 92 PMLKRALYVLVGLSALAILYFVIRTFRLRRR 122 (163)
T ss_pred cchhhhHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 3466778888888888888888877665553
No 60
>PF10661 EssA: WXG100 protein secretion system (Wss), protein EssA; InterPro: IPR018920 The Wss (WXG100 protein secretion system) in Staphylococcus aureus seems to be encoded by a locus of eight ORFs, called ess (eSAT-6 secretion system) []. This locus encodes, amongst several other proteins, EssA, a protein predicted to possess one transmembrane domain. Due to its predicted membrane location and its absolute requirement for WXG100 protein secretion, it has been speculated that EssA could form a secretion apparatus in conjunction with YukC and YukAB. Proteins homologous to EssA, YukC, EsaA and YukD were absent from mycobacteria []. Members of this family are associated with type VII secretion of WXG100 family targets in the Firmicutes, but not in the Actinobacteria. This highly divergent protein family consists largely of a central region of highly polar low-complexity sequence containing occasional LF motifs in weak repeats about 17 residues in length, flanked by hydrophobic N- and C-terminal regions.
Probab=32.30 E-value=44 Score=28.26 Aligned_cols=28 Identities=21% Similarity=0.508 Sum_probs=22.3
Q ss_pred ccCChhHHHHHHHHHHHHHHHhhhhccc
Q 041608 188 KPLEPNLWLTTAALFLLTSFVMWIIERP 215 (448)
Q Consensus 188 ~PF~~~vWl~i~~~~~~~~~~l~~~~r~ 215 (448)
.|.++.++++++++++++++.+|.+.|.
T Consensus 115 ~~~~~~i~~~i~g~ll~i~~giy~~~r~ 142 (145)
T PF10661_consen 115 KPISPTILLSIGGILLAICGGIYVVLRK 142 (145)
T ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4677888888888888888888887664
No 61
>PF14851 FAM176: FAM176 family
Probab=31.90 E-value=59 Score=27.73 Aligned_cols=29 Identities=17% Similarity=0.425 Sum_probs=15.7
Q ss_pred chhhHHHHHHH--HHHHHHHHHHHHHHHHhc
Q 041608 407 NFGGLFLITGI--SLTLALVIFLLPSIYKKN 435 (448)
Q Consensus 407 ~~~g~F~il~~--g~~lallv~~~E~~~~~~ 435 (448)
.-.++|+++++ |+++.+.++++-+.++.|
T Consensus 20 E~~aLYFv~gVC~GLlLtLcllV~risc~~r 50 (153)
T PF14851_consen 20 ERFALYFVSGVCAGLLLTLCLLVIRISCRPR 50 (153)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhheeecc
Confidence 34566666654 455555555555555333
No 62
>TIGR00787 dctP tripartite ATP-independent periplasmic transporter solute receptor, DctP family. TRAP-T (Tripartite ATP-independent Periplasmic Transporter) family proteins generally consist of three components, and these systems have so far been found in Gram-negative bacteria, Gram-postive bacteria and archaea. The best characterized example is the DctPQM system of Rhodobacter capsulatus, a C4 dicarboxylate (malate, fumarate, succinate) transporter. This model represents the DctP family, one of at least three major families of extracytoplasmic solute receptor for TRAP family transporters. Other are the SnoM family (see pfam03480) and TAXI (TRAP-associated extracytoplasmic immunogenic) family.
Probab=30.29 E-value=2.2e+02 Score=26.30 Aligned_cols=91 Identities=13% Similarity=0.095 Sum_probs=53.4
Q ss_pred cceeeecCCcHHhhhhcCCCCcccccccCCHHHHHHHhccCccCCceEEEEcchhhHHHH-HHcCCCceEEeCCCccCCC
Q 041608 267 DNIGSQLGSVVPGALSNLNFKDSRLKKYNSTKEYANALSKESKNGGISAIIDEMPYIKAF-LAKYSAHYTLTAPKNTNST 345 (448)
Q Consensus 267 ~~v~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~y~-~~~~c~~l~~v~~~~~~~~ 345 (448)
+++.+..++.....++..+. .. ...+..+...+|.+|. +|+++.....+..+ +....+.+...+ ...
T Consensus 137 ~kir~~~~~~~~~~~~~~Ga---~~-v~~~~~e~~~aL~~G~----vDg~~~~~~~~~~~~~~ev~~y~~~~~----~~~ 204 (257)
T TIGR00787 137 LKIRIPNSPMNEAQFKALGA---NP-EPMAFSEVYTALQTGV----VDGQENPLSNVYSSKFYEVQKYLSMTN----HGY 204 (257)
T ss_pred CEEecCCCHHHHHHHHHcCC---cc-cccCHHHHHHHHHcCC----cccccCCHHHHhhcchhhhcchheecC----Ccc
Confidence 89998877777778776653 22 3667788999997666 99988764433211 111132333322 234
Q ss_pred CCeeEEEecCC--ccHHHHHHHHHhH
Q 041608 346 NGFGFVFQKGS--SLVHDISKAIARL 369 (448)
Q Consensus 346 ~~~~~a~~k~s--pl~~~in~~il~l 369 (448)
....+.+.++. .|-+...++|.+.
T Consensus 205 ~~~~~~~n~~~~~~L~~e~q~~i~~a 230 (257)
T TIGR00787 205 LGYLVVVNKAFWKSLPPDLQAVVKEA 230 (257)
T ss_pred cceEEEEeHHHHhcCCHHHHHHHHHH
Confidence 55677788762 2444444444443
No 63
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=29.23 E-value=1.4e+02 Score=24.52 Aligned_cols=27 Identities=7% Similarity=-0.048 Sum_probs=11.8
Q ss_pred CccccchhhHHHHHHHHHHHHHHHHHH
Q 041608 402 SLSLTNFGGLFLITGISLTLALVIFLL 428 (448)
Q Consensus 402 ~l~l~~~~g~F~il~~g~~lallv~~~ 428 (448)
++--.--.++...+++|.+++++..++
T Consensus 56 ql~h~fs~~~i~~Ii~gv~aGvIg~Il 82 (122)
T PF01102_consen 56 QLVHRFSEPAIIGIIFGVMAGVIGIIL 82 (122)
T ss_dssp SSSSSSS-TCHHHHHHHHHHHHHHHHH
T ss_pred ccccCccccceeehhHHHHHHHHHHHH
Confidence 333333344555555555544444443
No 64
>PF05961 Chordopox_A13L: Chordopoxvirus A13L protein; InterPro: IPR009236 This family consists of A13L proteins from the Chordopoxviruses. A13L or p8 is one of the three most abundant membrane proteins of the intracellular mature Vaccinia virus [].
Probab=28.73 E-value=1.2e+02 Score=21.81 Aligned_cols=25 Identities=20% Similarity=0.304 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhccccc
Q 041608 415 TGISLTLALVIFLLPSIYKKNAFWK 439 (448)
Q Consensus 415 l~~g~~lallv~~~E~~~~~~~~~~ 439 (448)
+.++++++++++++--+|.+.+...
T Consensus 6 iLi~ICVaii~lIlY~iYnr~~~~q 30 (68)
T PF05961_consen 6 ILIIICVAIIGLILYGIYNRKKTTQ 30 (68)
T ss_pred HHHHHHHHHHHHHHHHHHhcccccC
Confidence 3445566666666666777766654
No 65
>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=27.69 E-value=1.6e+02 Score=26.10 Aligned_cols=71 Identities=24% Similarity=0.273 Sum_probs=0.0
Q ss_pred ceecceEEEEEccCCCCceEeeccCChhHHHHHHHHHHHHHHHhhhhccccCCCCCCCcccchhhHHHHHHHHhhhcccc
Q 041608 166 YTEMGIGMIVPIDQSNNIWIFLKPLEPNLWLTTAALFLLTSFVMWIIERPVNDEFQGSRAHQFGMIFWYSFSTLVFSQRE 245 (448)
Q Consensus 166 ~~~~~~~ilv~~~~~~~~~~fl~PF~~~vWl~i~~~~~~~~~~l~~~~r~~~~~~~~~~~~~~~~~~w~~~~~l~~q~~~ 245 (448)
+......++++++.... ++.+++|
T Consensus 70 ~~~~~~~l~~~~~s~i~---------------------------------~~~DLkG----------------------- 93 (216)
T PF09084_consen 70 YQSSPNALVVRKDSGIK---------------------------------SPADLKG----------------------- 93 (216)
T ss_dssp EEECCEEEEEETTTS-S---------------------------------SGGGGTT-----------------------
T ss_pred cCCCceEEEEeccCCCC---------------------------------CHHHhCC-----------------------
Q ss_pred cccccccchhhhhhhhhhhcccceeeecCCcHHhhh----hcCCCCcccccccCC-HHHHHHHhccCccCCceEEEE
Q 041608 246 KLFSNLSKFVVIVWLFVLASMDNIGSQLGSVVPGAL----SNLNFKDSRLKKYNS-TKEYANALSKESKNGGISAII 317 (448)
Q Consensus 246 ~~~s~s~Ri~~~~W~~~~sSy~~v~~~~~s~~~~~l----~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~a~i 317 (448)
+++|+..++..+.++ +..+...+.+..... ..+...+|.+|+ +||.+
T Consensus 94 ---------------------K~i~v~~~s~~~~~~~~~l~~~g~~~~~v~~v~~~~~~~~~al~~g~----vDa~~ 145 (216)
T PF09084_consen 94 ---------------------KKIGVSRGSSSEYFLRALLKKNGIDPDDVKIVNLGPPELAQALLSGQ----VDAAI 145 (216)
T ss_dssp ---------------------SEEEESTTSHHHHHHHHHHHHTTT-GGGSEEEES-HHHHHHHHHTTS----SSEEE
T ss_pred ---------------------CEEEEecCcchhHHHHHHHHHhccccccceeeeeehhhhhhhhhcCC----CCEEE
No 66
>PF06170 DUF983: Protein of unknown function (DUF983); InterPro: IPR009325 This family consists of several bacterial proteins of unknown function.
Probab=26.67 E-value=1.1e+02 Score=23.24 Aligned_cols=30 Identities=7% Similarity=0.084 Sum_probs=23.5
Q ss_pred ccccchhhHHHHHHHHHHHHHHHHHHHHHH
Q 041608 403 LSLTNFGGLFLITGISLTLALVIFLLPSIY 432 (448)
Q Consensus 403 l~l~~~~g~F~il~~g~~lallv~~~E~~~ 432 (448)
..-+|.-..|.++++|.++..+++.+|..+
T Consensus 21 ~~adDgPA~fvi~ivg~ivv~~~l~~~~~~ 50 (86)
T PF06170_consen 21 ARADDGPAYFVILIVGHIVVPLALWVEMAF 50 (86)
T ss_pred CCcCccchhHHHHHHHHHHHHHHHHHHhhc
Confidence 334677778888999999998888888754
No 67
>PF06645 SPC12: Microsomal signal peptidase 12 kDa subunit (SPC12); InterPro: IPR009542 This family consists of several microsomal signal peptidase 12 kDa subunit proteins. Translocation of polypeptide chains across the endoplasmic reticulum (ER) membrane is triggered by signal sequences. Subsequently, signal recognition particle interacts with its membrane receptor and the ribosome-bound nascent chain is targeted to the ER where it is transferred into a protein-conducting channel. At some point, a second signal sequence recognition event takes place in the membrane and translocation of the nascent chain through the membrane occurs. The signal sequence of most secretory and membrane proteins is cleaved off at this stage. Cleavage occurs by the signal peptidase complex (SPC) as soon as the lumenal domain of the translocating polypeptide is large enough to expose its cleavage site to the enzyme. The signal peptidase complex is possibly also involved in proteolytic events in the ER membrane other than the processing of the signal sequence, for example the further digestion of the cleaved signal peptide or the degradation of membrane proteins. Mammalian signal peptidase is as a complex of five different polypeptide chains. This family represents the 12 kDa subunit (SPC12).; GO: 0008233 peptidase activity, 0006465 signal peptide processing, 0005787 signal peptidase complex, 0016021 integral to membrane
Probab=26.03 E-value=55 Score=24.28 Aligned_cols=35 Identities=23% Similarity=0.340 Sum_probs=26.8
Q ss_pred ccchhhHHHHHHHHHHHHHHHHHHHHHHHhccccc
Q 041608 405 LTNFGGLFLITGISLTLALVIFLLPSIYKKNAFWK 439 (448)
Q Consensus 405 l~~~~g~F~il~~g~~lallv~~~E~~~~~~~~~~ 439 (448)
.+++.-.+++.++|+++++++++=.+=+++|+-.+
T Consensus 31 ~q~~~~~~~~~~~g~~~~~lv~vP~Wp~y~r~p~~ 65 (76)
T PF06645_consen 31 TQSFSYTFYIYGAGVVLTLLVVVPPWPFYNRHPLK 65 (76)
T ss_pred HHHHHHHHHHHHHHHHHHHhheeCCcHhhcCCccc
Confidence 35788889999999999999998777555555444
No 68
>PRK10537 voltage-gated potassium channel; Provisional
Probab=25.37 E-value=1.1e+02 Score=30.67 Aligned_cols=40 Identities=13% Similarity=0.208 Sum_probs=31.8
Q ss_pred cccchhhHHHHHHHHhhhcc-cc-cccccccchhhhhhhhhh
Q 041608 224 RAHQFGMIFWYSFSTLVFSQ-RE-KLFSNLSKFVVIVWLFVL 263 (448)
Q Consensus 224 ~~~~~~~~~w~~~~~l~~q~-~~-~~~s~s~Ri~~~~W~~~~ 263 (448)
...++.+++|+++.++..-| ++ .|.+..+|+++.++.++.
T Consensus 165 ~~~s~~dA~y~svvt~tTvGyGdi~p~t~~grl~~i~~ii~G 206 (393)
T PRK10537 165 PIESLSTAFYFSIVTMSTVGYGDIVPVSESARLFTISVIILG 206 (393)
T ss_pred CCCCHHHHHHhhheeeecccCCCCCCCCHHHHHHHHHHHHHH
Confidence 34579999999999888655 44 578889999999887654
No 69
>PF13396 PLDc_N: Phospholipase_D-nuclease N-terminal
Probab=24.99 E-value=75 Score=20.62 Aligned_cols=28 Identities=21% Similarity=0.459 Sum_probs=22.8
Q ss_pred ccCChhHHHHHHHHHHHHHHHhhhhccc
Q 041608 188 KPLEPNLWLTTAALFLLTSFVMWIIERP 215 (448)
Q Consensus 188 ~PF~~~vWl~i~~~~~~~~~~l~~~~r~ 215 (448)
+|-+.-.|+.+++.+-++|.++|++-++
T Consensus 18 ~~~~k~~W~~~i~~~P~iG~i~Yl~~gr 45 (46)
T PF13396_consen 18 SPSSKILWLIVILFFPIIGPILYLIFGR 45 (46)
T ss_pred CCchhhHHHHHHHHHHHHHHhheEEEeC
Confidence 4556779999999999999999887543
No 70
>TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=24.99 E-value=93 Score=23.06 Aligned_cols=23 Identities=13% Similarity=0.040 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHHHHHHhcccccc
Q 041608 418 SLTLALVIFLLPSIYKKNAFWKE 440 (448)
Q Consensus 418 g~~lallv~~~E~~~~~~~~~~~ 440 (448)
.+++.+++..++++.|.++.++.
T Consensus 10 liif~ifVap~wl~lHY~~k~~~ 32 (75)
T TIGR02976 10 LIIFVIFVAPLWLILHYRSKRKT 32 (75)
T ss_pred HHHHHHHHHHHHHHHHHHhhhcc
Confidence 34445555666776666655553
No 71
>COG3114 CcmD Heme exporter protein D [Intracellular trafficking and secretion]
Probab=24.74 E-value=25 Score=24.93 Aligned_cols=28 Identities=18% Similarity=0.528 Sum_probs=16.5
Q ss_pred HHHHHHHHH-HHHHHHHHHHHHHhccccc
Q 041608 412 FLITGISLT-LALVIFLLPSIYKKNAFWK 439 (448)
Q Consensus 412 F~il~~g~~-lallv~~~E~~~~~~~~~~ 439 (448)
|+-++.|+. +++++++++-++.+++..+
T Consensus 18 yVWlA~~~tll~l~~l~v~sv~qrr~iL~ 46 (67)
T COG3114 18 YVWLAVGMTLLPLAVLVVHSVLQRRAILR 46 (67)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333445544 5666667777776666544
No 72
>TIGR03061 pip_yhgE_Nterm YhgE/Pip N-terminal domain. This family contains the N-terminal domain of a family of multiple membrane-spanning proteins of Gram-positive bacteria. One member was shown to be a host protein essential for phage infection, so many members of this family are called "phage infection protein". A separate model, TIGR03062, represents the conserved C-terminal domain. The domains are separated by regions highly variable in both length and sequence, often containing extended heptad repeats as described in model TIGR03057.
Probab=24.49 E-value=3.6e+02 Score=22.95 Aligned_cols=19 Identities=26% Similarity=0.307 Sum_probs=13.9
Q ss_pred CHHHHHHHhccCccCCceEEEEc
Q 041608 296 STKEYANALSKESKNGGISAIID 318 (448)
Q Consensus 296 ~~~~~~~~l~~~~~~~~~~a~i~ 318 (448)
+.+++.+++.+|+ +++++.
T Consensus 84 ~~~ea~~~l~~g~----~~~~iv 102 (164)
T TIGR03061 84 SAKEAEKGLADGK----YYMVIT 102 (164)
T ss_pred CHHHHHHHhHcCc----EEEEEE
Confidence 7788888995554 887664
No 73
>PF01054 MMTV_SAg: Mouse mammary tumour virus superantigen; InterPro: IPR001213 The Mouse mammary tumor virus (MMTV) is a milk-transmitted type B retrovirus. The superantigen (SAg) is encoded in the long terminal repeat [].
Probab=23.93 E-value=92 Score=28.02 Aligned_cols=62 Identities=11% Similarity=0.141 Sum_probs=32.8
Q ss_pred hHHHHHhcccCCCccCCCCC--------CCC---CCCCccccchhhHHHHHHHHHHHHHHHHHHHHHHHhccccc
Q 041608 376 TKIENEWFIDRQSSFMHKGS--------ISD---NPSSLSLTNFGGLFLITGISLTLALVIFLLPSIYKKNAFWK 439 (448)
Q Consensus 376 ~~l~~kw~~~~~~~c~~~~~--------~~~---~~~~l~l~~~~g~F~il~~g~~lallv~~~E~~~~~~~~~~ 439 (448)
-++.+||++. .+|+.-.. +++ .-..++-.+---+.+..-+|+++..+-++.|...+.|+...
T Consensus 2 prlqqkwlns--recptlr~eaakglfptkddpsa~~~mspsdkdi~i~ccklgiallclgllgevavra~ralt 74 (313)
T PF01054_consen 2 PRLQQKWLNS--RECPTLRREAAKGLFPTKDDPSACTRMSPSDKDILILCCKLGIALLCLGLLGEVAVRARRALT 74 (313)
T ss_pred chhhhhhccc--ccCCCchhhhhcCCCCCCCCchhhccCCCCcCceEEeehhhhHHHHHHHHHHHHHHHHHhhhh
Confidence 3578899987 67875211 111 11233333322222333345555556667898877766554
No 74
>PLN03192 Voltage-dependent potassium channel; Provisional
Probab=23.85 E-value=1.2e+02 Score=33.83 Aligned_cols=37 Identities=8% Similarity=0.302 Sum_probs=29.9
Q ss_pred chhhHHHHHHHHhhhcc-cc-cccccccchhhhhhhhhh
Q 041608 227 QFGMIFWYSFSTLVFSQ-RE-KLFSNLSKFVVIVWLFVL 263 (448)
Q Consensus 227 ~~~~~~w~~~~~l~~q~-~~-~~~s~s~Ri~~~~W~~~~ 263 (448)
+...|+|+++.+++.-| |+ .|.+...|++.++++++.
T Consensus 250 ~Yi~slYwai~TmtTVGYGDi~p~t~~E~i~~i~~ml~g 288 (823)
T PLN03192 250 RYISAIYWSITTMTTVGYGDLHAVNTIEMIFIIFYMLFN 288 (823)
T ss_pred HHHHHHHHHHHHHhhccCCCcCCCccchHHHHHHHHHHH
Confidence 35568999999998755 55 688999999999998765
No 75
>COG3105 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.08 E-value=81 Score=25.88 Aligned_cols=32 Identities=13% Similarity=0.131 Sum_probs=25.8
Q ss_pred ChhHHHHHHHHHHHHHHHhhhhccccCCCCCC
Q 041608 191 EPNLWLTTAALFLLTSFVMWIIERPVNDEFQG 222 (448)
Q Consensus 191 ~~~vWl~i~~~~~~~~~~l~~~~r~~~~~~~~ 222 (448)
+...|++.++.+++..++-+++.|..+...+.
T Consensus 4 t~~~W~~a~igLvvGi~IG~li~Rlt~~~~k~ 35 (138)
T COG3105 4 TFMTWEYALIGLVVGIIIGALIARLTNRKLKQ 35 (138)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHcchhhhh
Confidence 46789999999998888888888877665543
No 76
>TIGR03141 cytochro_ccmD heme exporter protein CcmD. The model for this protein family describes a small, hydrophobic, and only moderately well-conserved protein, tricky to identify accurately for all of these reasons. However, members are found as part of large operons involved in heme export across the inner membrane for assembly of c-type cytochromes in a large number of bacteria. The gray zone between the trusted cutoff (13.0) and noise cutoff (4.75) includes both low-scoring examples and false-positive matches to hydrophobic domains of longer proteins.
Probab=21.85 E-value=1.1e+02 Score=20.09 Aligned_cols=15 Identities=7% Similarity=0.290 Sum_probs=6.9
Q ss_pred hHHHHHHHHHHHHHH
Q 041608 410 GLFLITGISLTLALV 424 (448)
Q Consensus 410 g~F~il~~g~~lall 424 (448)
|.|+...-|+.+.++
T Consensus 5 ~~yVW~sYg~t~l~l 19 (45)
T TIGR03141 5 AFYVWLAYGITALVL 19 (45)
T ss_pred cHHHHHHHHHHHHHH
Confidence 344444445544444
No 77
>PF05393 Hum_adeno_E3A: Human adenovirus early E3A glycoprotein; InterPro: IPR008652 This family consists of several early glycoproteins (E3A), from human adenovirus type 2.; GO: 0016021 integral to membrane
Probab=21.71 E-value=1.5e+02 Score=22.52 Aligned_cols=9 Identities=22% Similarity=0.036 Sum_probs=4.8
Q ss_pred HHHhccccc
Q 041608 431 IYKKNAFWK 439 (448)
Q Consensus 431 ~~~~~~~~~ 439 (448)
++++|++.|
T Consensus 54 CC~kRkrsR 62 (94)
T PF05393_consen 54 CCKKRKRSR 62 (94)
T ss_pred HHHHhhhcc
Confidence 455555554
No 78
>TIGR03427 ABC_peri_uca ABC transporter periplasmic binding protein, urea carboxylase region. Members of this family are ABC transporter periplasmic binding proteins associated with the urea carboxylase/allophanate hydrolase pathway, an alternative to urease for urea degradation. The protein is restricted to bacteria with the pathway, with its gene close to the urea carboxylase and allophanate hydrolase genes. The substrate for this transporter therefore is likely to be urea or a compound from which urea is easily derived.
Probab=21.47 E-value=1.1e+02 Score=29.71 Aligned_cols=59 Identities=15% Similarity=0.190 Sum_probs=38.6
Q ss_pred cceeeecCCcHHhhh----hcCCCCcccccc-cCCHHHHHHHhccCccCCceEEEEcchhhHHHHHHc
Q 041608 267 DNIGSQLGSVVPGAL----SNLNFKDSRLKK-YNSTKEYANALSKESKNGGISAIIDEMPYIKAFLAK 329 (448)
Q Consensus 267 ~~v~~~~~s~~~~~l----~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~y~~~~ 329 (448)
++||+..++..+-++ ++.+.....+.. .-+..+...++.+|+ +||.+.-.++......+
T Consensus 107 KkIav~~gs~~~~ll~~aL~~aGL~~~DV~~v~~~~~d~~aAl~~G~----VDAa~~~eP~~s~~~~~ 170 (328)
T TIGR03427 107 QKVNLVELSVSHYLLARALESVGLSEKDVKVVNTSDADIVAAFITKD----VTAVVTWNPQLSEIKAQ 170 (328)
T ss_pred CEEeccCCChHHHHHHHHHHHcCCCHHHeEEEeCChHHHHHHHhcCC----CcEEEEcCchHHHHHhC
Confidence 999999998776544 344554332222 224467789995555 99998888876655544
No 79
>PF08173 YbgT_YccB: Membrane bound YbgT-like protein; InterPro: IPR012994 This family contains a set of membrane proteins, typically 33 amino acids long. The family has no known function, but the protein is found in the operon CydAB in Escherichia coli. Members have a consensus motif (MWYFXW), which is rich in aromatic residues. The protein forms a single membrane-spanning helix. This family seems to be restricted to proteobacteria [].
Probab=21.41 E-value=1.9e+02 Score=16.99 Aligned_cols=21 Identities=14% Similarity=0.262 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 041608 412 FLITGISLTLALVIFLLPSIY 432 (448)
Q Consensus 412 F~il~~g~~lallv~~~E~~~ 432 (448)
|+.+++|+++|+.+.++--+|
T Consensus 3 YfaWilG~~lA~~~~i~~a~w 23 (28)
T PF08173_consen 3 YFAWILGVLLACAFGILNAMW 23 (28)
T ss_pred hHHHHHHHHHHHHHHHHHHHH
Confidence 344555666665555554444
No 80
>TIGR02106 cyd_oper_ybgT cyd operon protein YbgT. This model describes a very small (as short as 33 amino acids) protein of unknown function, essentially always found in an operon with CydAB, subunits of the cytochrome d terminal oxidase. It begins with an aromatic motif MWYFXW and appears to contain a membrane-spanning helix. This protein appears to be restricted to the Proteobacteria and exist in a single copy only. We suggest it may be a membrane subunit of the terminal oxidase. The family is named after the E. coli member YbgT. This model excludes the apparently related protein YccB.
Probab=21.08 E-value=2e+02 Score=17.17 Aligned_cols=23 Identities=13% Similarity=0.167 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Q 041608 412 FLITGISLTLALVIFLLPSIYKK 434 (448)
Q Consensus 412 F~il~~g~~lallv~~~E~~~~~ 434 (448)
|+.+++|+++++.+.++--+|.-
T Consensus 3 YfaWilG~~lA~~~~v~~a~w~E 25 (30)
T TIGR02106 3 YFAWILGTLLACAFGVLNAMWLE 25 (30)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455666666666655555544
No 81
>PF11712 Vma12: Endoplasmic reticulum-based factor for assembly of V-ATPase; InterPro: IPR021013 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. The yeast vacuolar proton-translocating ATPase (V-ATPase) is the best characterised member of the V-ATPase family. A total of thirteen genes are required for encoding the subunits of the enzyme complex itself and an additional three for providing factors necessary for the assembly of the whole. Vma12 is one of these latter, all three of which are localised to the endoplasmic reticulum [].
Probab=20.90 E-value=97 Score=26.01 Aligned_cols=25 Identities=16% Similarity=0.125 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhccccc
Q 041608 415 TGISLTLALVIFLLPSIYKKNAFWK 439 (448)
Q Consensus 415 l~~g~~lallv~~~E~~~~~~~~~~ 439 (448)
+++|++.|+++++.|.+...+...+
T Consensus 113 vllgl~~al~vlvAEv~l~~~y~~k 137 (142)
T PF11712_consen 113 VLLGLFGALLVLVAEVVLYIRYLRK 137 (142)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 5678889999999999776655443
No 82
>PF06667 PspB: Phage shock protein B; InterPro: IPR009554 This family consists of several bacterial phage shock protein B (PspB) sequences. The phage shock protein (psp) operon is induced in response to heat, ethanol, osmotic shock and infection by filamentous bacteriophages []. Expression of the operon requires the alternative sigma factor sigma54 and the transcriptional activator PspF. In addition, PspA plays a negative regulatory role, and the integral-membrane proteins PspB and PspC play a positive one [].; GO: 0006355 regulation of transcription, DNA-dependent, 0009271 phage shock
Probab=20.23 E-value=1.4e+02 Score=22.17 Aligned_cols=23 Identities=13% Similarity=0.212 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHHHHHHhccccc
Q 041608 417 ISLTLALVIFLLPSIYKKNAFWK 439 (448)
Q Consensus 417 ~g~~lallv~~~E~~~~~~~~~~ 439 (448)
..+++.++|..++++.|+++.++
T Consensus 9 plivf~ifVap~WL~lHY~sk~~ 31 (75)
T PF06667_consen 9 PLIVFMIFVAPIWLILHYRSKWK 31 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcc
Confidence 33344445555566555555444
No 83
>PRK11677 hypothetical protein; Provisional
Probab=20.09 E-value=99 Score=25.78 Aligned_cols=25 Identities=12% Similarity=0.082 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHHHHhhhhccccCCC
Q 041608 195 WLTTAALFLLTSFVMWIIERPVNDE 219 (448)
Q Consensus 195 Wl~i~~~~~~~~~~l~~~~r~~~~~ 219 (448)
|++.+++++++.++-+++.|.....
T Consensus 3 W~~a~i~livG~iiG~~~~R~~~~~ 27 (134)
T PRK11677 3 WEYALIGLVVGIIIGAVAMRFGNRK 27 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHhhccch
Confidence 8888888888888888888875544
Done!