Query 010731
Match_columns 502
No_of_seqs 355 out of 2248
Neff 7.0
Searched_HMMs 46136
Date Fri Mar 29 03:55:29 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/010731.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/010731hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK10334 mechanosensitive chan 100.0 7.4E-46 1.6E-50 372.6 36.9 251 148-418 29-280 (286)
2 PRK11465 putative mechanosensi 100.0 2.2E-43 4.9E-48 387.1 44.0 290 108-413 425-722 (741)
3 PRK11281 hypothetical protein; 100.0 2.4E-40 5.1E-45 378.7 42.2 254 146-418 835-1091(1113)
4 PRK10929 putative mechanosensi 100.0 3.1E-40 6.7E-45 376.4 37.0 252 148-418 834-1088(1109)
5 COG3264 Small-conductance mech 100.0 2.5E-36 5.5E-41 328.8 37.7 250 149-417 560-812 (835)
6 PF00924 MS_channel: Mechanose 100.0 2.9E-37 6.4E-42 296.3 22.2 203 196-406 2-206 (206)
7 COG0668 MscS Small-conductance 100.0 1.9E-34 4.1E-39 293.3 35.7 208 193-414 86-296 (316)
8 KOG4629 Predicted mechanosensi 99.8 7.6E-20 1.7E-24 200.3 14.1 224 187-417 476-702 (714)
9 PRK05886 yajC preprotein trans 74.0 15 0.00032 32.0 7.1 37 255-295 39-75 (109)
10 PF12794 MscS_TM: Mechanosensi 71.1 1.2E+02 0.0026 31.5 14.6 29 192-220 194-223 (340)
11 PRK05585 yajC preprotein trans 70.0 12 0.00027 32.2 5.7 40 255-298 53-92 (106)
12 PRK10263 DNA translocase FtsK; 69.7 1.5E+02 0.0032 36.5 16.2 10 486-495 522-531 (1355)
13 TIGR00739 yajC preprotein tran 67.8 16 0.00035 30.1 5.8 37 255-295 38-74 (84)
14 smart00739 KOW KOW (Kyprides, 67.2 9.6 0.00021 23.8 3.5 24 254-278 1-26 (28)
15 PRK10334 mechanosensitive chan 65.2 1.6E+02 0.0035 29.9 13.7 27 67-93 30-56 (286)
16 COG1862 YajC Preprotein transl 62.3 34 0.00073 29.1 6.8 42 255-300 44-85 (97)
17 PF09953 DUF2187: Uncharacteri 59.8 15 0.00033 28.0 3.8 28 255-286 4-31 (57)
18 PF12961 DUF3850: Domain of Un 59.2 21 0.00046 28.7 4.7 31 251-281 25-56 (72)
19 PF05552 TM_helix: Conserved T 57.3 27 0.00057 26.0 4.8 31 65-95 15-45 (53)
20 PF14801 GCD14_N: tRNA methylt 56.3 6.2 0.00013 29.7 1.2 24 252-279 3-26 (54)
21 PF00467 KOW: KOW motif; Inte 54.4 21 0.00045 23.7 3.4 22 257-279 1-24 (32)
22 PF11449 DUF2899: Protein of u 51.5 2.4E+02 0.0053 28.9 12.1 44 189-232 177-224 (298)
23 COG4956 Integral membrane prot 51.3 2.7E+02 0.0057 28.9 12.1 32 59-90 36-67 (356)
24 PRK08559 nusG transcription an 49.5 52 0.0011 30.1 6.4 47 253-300 93-145 (153)
25 COG0053 MMT1 Predicted Co/Zn/C 49.1 3.1E+02 0.0067 28.1 18.5 34 313-346 244-278 (304)
26 PRK10929 putative mechanosensi 48.6 2.7E+02 0.0058 33.9 13.6 31 66-96 834-864 (1109)
27 PF05552 TM_helix: Conserved T 47.5 38 0.00082 25.1 4.3 36 145-181 13-48 (53)
28 PF09926 DUF2158: Uncharacteri 46.8 19 0.00041 27.1 2.5 23 255-279 1-23 (53)
29 cd04466 S1_YloQ_GTPase S1_YloQ 42.6 47 0.001 25.4 4.3 31 253-285 36-66 (68)
30 PF14545 DBB: Dof, BCAP, and B 42.5 53 0.0011 29.9 5.2 81 247-333 15-96 (142)
31 PF13726 Na_H_antiport_2: Na+- 42.3 51 0.0011 27.5 4.6 43 205-247 7-50 (88)
32 TIGR00405 L26e_arch ribosomal 42.3 61 0.0013 29.2 5.7 25 253-278 85-111 (145)
33 PRK12281 rplX 50S ribosomal pr 41.4 33 0.00072 27.8 3.3 27 254-281 6-34 (76)
34 PRK06531 yajC preprotein trans 40.8 71 0.0015 28.0 5.5 38 255-296 37-75 (113)
35 KOG4330 Uncharacterized conser 40.5 39 0.00084 31.8 4.0 32 471-502 151-182 (206)
36 PF00575 S1: S1 RNA binding do 40.5 79 0.0017 24.4 5.4 40 270-310 8-47 (74)
37 COG4873 Uncharacterized protei 40.4 34 0.00075 26.9 3.1 25 254-281 23-47 (81)
38 PF02933 CDC48_2: Cell divisio 38.8 74 0.0016 24.4 4.9 32 250-281 14-45 (64)
39 PF06442 DHFR_2: R67 dihydrofo 38.1 38 0.00083 26.4 3.0 42 240-285 8-50 (78)
40 COG2139 RPL21A Ribosomal prote 36.9 60 0.0013 27.5 4.2 38 253-291 31-79 (98)
41 CHL00141 rpl24 ribosomal prote 36.2 44 0.00095 27.5 3.3 27 254-281 8-36 (83)
42 PF04156 IncA: IncA protein; 35.7 1.6E+02 0.0035 27.5 7.7 38 210-253 25-63 (191)
43 COG3264 Small-conductance mech 35.3 8.1E+02 0.017 28.9 16.0 23 193-215 510-532 (835)
44 PF02699 YajC: Preprotein tran 34.7 13 0.00028 30.5 0.0 39 253-295 35-73 (82)
45 smart00743 Agenet Tudor-like d 34.6 1.4E+02 0.0031 22.3 5.8 26 254-279 2-29 (61)
46 PF02934 GatB_N: GatB/GatE cat 34.2 2.4E+02 0.0052 28.8 8.9 143 245-400 85-234 (289)
47 PF12794 MscS_TM: Mechanosensi 33.5 5.7E+02 0.012 26.6 17.3 45 191-235 122-168 (340)
48 COG1033 Predicted exporters of 32.8 8.4E+02 0.018 28.3 16.9 26 211-236 313-338 (727)
49 COG1377 FlhB Flagellar biosynt 32.0 6.4E+02 0.014 26.7 18.8 26 146-171 142-167 (363)
50 PF01157 Ribosomal_L21e: Ribos 31.9 55 0.0012 28.0 3.3 28 253-280 31-69 (99)
51 PRK00004 rplX 50S ribosomal pr 31.0 57 0.0012 28.1 3.4 27 254-281 4-32 (105)
52 cd04461 S1_Rrp5_repeat_hs8_sc7 30.8 1.2E+02 0.0027 24.1 5.2 43 255-307 12-54 (83)
53 PRK10694 acyl-CoA esterase; Pr 30.4 54 0.0012 29.3 3.3 31 248-286 61-91 (133)
54 cd05705 S1_Rrp5_repeat_hs14 S1 28.9 1.9E+02 0.0042 22.7 6.0 44 255-308 1-44 (74)
55 PRK01191 rpl24p 50S ribosomal 28.9 59 0.0013 28.8 3.1 26 254-280 45-72 (120)
56 COG4858 Uncharacterized membra 28.8 5.3E+02 0.012 24.8 12.5 69 50-124 108-179 (226)
57 PRK13889 conjugal transfer rel 28.5 94 0.002 37.2 5.6 47 253-300 599-651 (988)
58 PRK04306 50S ribosomal protein 28.3 1E+02 0.0022 26.3 4.4 29 253-281 33-72 (98)
59 PF09378 HAS-barrel: HAS barre 28.3 70 0.0015 25.9 3.4 27 254-280 22-49 (91)
60 smart00333 TUDOR Tudor domain. 27.7 2.4E+02 0.0052 20.5 6.1 46 254-300 2-50 (57)
61 TIGR01080 rplX_A_E ribosomal p 27.4 67 0.0014 28.2 3.2 24 254-278 41-66 (114)
62 PRK09459 pspG phage shock prot 25.7 1.6E+02 0.0034 23.9 4.7 27 202-228 5-31 (76)
63 PF06107 DUF951: Bacterial pro 25.4 1.8E+02 0.0039 22.3 4.8 45 255-301 2-49 (57)
64 PF13452 MaoC_dehydrat_N: N-te 25.4 1.5E+02 0.0033 25.6 5.2 19 245-263 78-96 (132)
65 PF10929 DUF2811: Protein of u 25.3 51 0.0011 25.2 1.8 19 333-351 10-28 (57)
66 TIGR01079 rplX_bact ribosomal 25.1 86 0.0019 27.0 3.4 26 254-280 3-30 (104)
67 PRK12585 putative monovalent c 24.9 1.5E+02 0.0032 28.4 5.2 7 327-333 128-134 (197)
68 PRK09014 rfaH transcriptional 24.5 87 0.0019 28.6 3.6 26 252-278 107-134 (162)
69 TIGR01129 secD protein-export 24.3 8.8E+02 0.019 25.8 12.5 8 209-216 361-368 (397)
70 PF11356 Pilus_PilP: Type IV p 24.2 89 0.0019 25.3 3.3 34 253-294 53-86 (87)
71 PRK00409 recombination and DNA 24.2 2.2E+02 0.0048 33.3 7.6 46 253-301 635-680 (782)
72 PF09871 DUF2098: Uncharacteri 24.2 93 0.002 26.2 3.3 24 253-278 1-24 (91)
73 PRK05609 nusG transcription an 24.0 1.9E+02 0.0041 26.8 5.9 26 252-278 124-151 (181)
74 PRK11281 hypothetical protein; 23.9 1.4E+03 0.03 28.0 18.7 7 292-298 833-839 (1113)
75 PF04791 LMBR1: LMBR1-like mem 23.9 9.2E+02 0.02 25.9 16.7 12 240-251 164-175 (471)
76 PRK02509 hypothetical protein; 23.4 1.3E+03 0.029 27.6 20.7 16 229-244 374-389 (973)
77 PHA00094 VI minor coat protein 23.4 5E+02 0.011 22.6 9.9 31 59-90 4-34 (112)
78 PRK08582 hypothetical protein; 23.0 2.8E+02 0.0062 24.9 6.6 41 255-305 3-43 (139)
79 PF02559 CarD_CdnL_TRCF: CarD- 22.8 2.4E+02 0.0051 23.4 5.7 44 255-301 2-52 (98)
80 cd03452 MaoC_C MaoC_C The C-t 22.8 2.1E+02 0.0046 25.4 5.8 16 248-263 82-97 (142)
81 PTZ00189 60S ribosomal protein 22.7 1.6E+02 0.0036 27.3 4.9 15 253-267 32-46 (160)
82 PRK14725 pyruvate kinase; Prov 22.7 1.3E+02 0.0028 34.0 5.0 82 254-338 372-467 (608)
83 PRK13692 (3R)-hydroxyacyl-ACP 22.5 2E+02 0.0043 26.4 5.6 15 249-263 91-105 (159)
84 cd01854 YjeQ_engC YjeQ/EngC. 22.4 1.5E+02 0.0033 29.9 5.2 34 253-288 33-66 (287)
85 PRK05812 secD preprotein trans 21.4 1.1E+03 0.024 26.0 12.6 16 62-77 329-344 (498)
86 COG0250 NusG Transcription ant 21.1 95 0.0021 29.3 3.2 26 254-280 123-150 (178)
87 cd04454 S1_Rrp4_like S1_Rrp4_l 21.0 2.3E+02 0.005 22.4 5.1 38 256-303 5-42 (82)
88 cd05698 S1_Rrp5_repeat_hs6_sc5 20.9 1.8E+02 0.0039 22.0 4.3 38 270-308 4-41 (70)
89 PRK04439 S-adenosylmethionine 20.7 3.5E+02 0.0076 28.9 7.5 80 317-402 156-244 (399)
90 PF08566 Pam17: Mitochondrial 20.6 3.9E+02 0.0084 25.2 7.0 35 213-247 71-105 (173)
91 PF01941 AdoMet_Synthase: S-ad 20.6 4.3E+02 0.0092 28.3 8.1 80 317-402 156-244 (396)
92 cd03454 YdeM YdeM is a Bacillu 20.5 2.3E+02 0.005 24.7 5.5 16 248-263 82-97 (140)
93 PF09583 Phageshock_PspG: Phag 20.3 2.4E+02 0.0053 22.1 4.6 29 202-230 5-33 (65)
94 PF11282 DUF3082: Protein of u 20.1 5E+02 0.011 21.4 8.7 25 156-180 13-37 (82)
95 TIGR02286 PaaD phenylacetic ac 20.1 2.2E+02 0.0049 24.0 5.1 38 248-293 63-104 (114)
96 PRK08187 pyruvate kinase; Vali 20.0 2E+02 0.0044 31.7 5.8 82 253-337 251-346 (493)
No 1
>PRK10334 mechanosensitive channel MscS; Provisional
Probab=100.00 E-value=7.4e-46 Score=372.64 Aligned_cols=251 Identities=18% Similarity=0.252 Sum_probs=224.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHhCCchHHHHHHHHH
Q 010731 148 LNFVRSLSTVLAFAYCLSSLIQQIQKFLTEANDADSTDARNMGFNFAGKAVYTAVWVAAVSLFMELLGFSTQRWLTAGGL 227 (502)
Q Consensus 148 ~~~~~~l~~il~~~~~~~~li~~~~~~~~~~~~~~~~~~~~~~~~~l~~i~~~~v~vi~~~~iL~~lG~~~~~lla~~Gi 227 (502)
++++.++ ++++++|++.+++..+.+....+... +.+..+++.++++++++++++++++..+|++.++++|++|+
T Consensus 29 ~~i~~al-~il~~~~~~~~~i~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~i~~~~~~~~l~~lGi~~~~l~a~~G~ 102 (286)
T PRK10334 29 VNIVAAL-AIIIVGLIIARMISNAVNRLMISRKI-----DATVADFLSALVRYGIIAFTLIAALGRVGVQTASVIAVLGA 102 (286)
T ss_pred HHHHHHH-HHHHHHHHHHHHHHHHHHHHHHhcCC-----ChHHHHHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHH
Confidence 3444344 45667888888888776655544332 23456788999999999999999999999999999999999
Q ss_pred HHHHHHHhhhhHHHHHHHHHHHHhcCCccCCcEEEEeecCcceEEEEEEEcceeEEEEEeCCCcEEEEeCcccccceEEE
Q 010731 228 GTVLLTLAGREIFTNFLSSVMIHATQPFVINEWIQTKIQGYEVSGTVEHVGWWSPTIIRGDDREAVHIPNHKFTVNVVRN 307 (502)
Q Consensus 228 ~glalgfAaq~~l~N~~aGi~I~~~~Pf~VGD~I~i~i~g~~~~G~Ve~I~l~~TT~irt~d~~~v~IPNs~l~~~~I~N 307 (502)
+|+++|||+|++++|++||++|+++|||++||||++ +|.+|+|++|+||+ |++|++||+.++|||+.+.++.|+|
T Consensus 103 ~glaiG~a~q~~l~N~~sGi~i~~~rpf~vGD~I~i----~~~~G~V~~I~~r~-T~i~t~d~~~v~IPNs~~~~~~i~N 177 (286)
T PRK10334 103 AGLAVGLALQGSLSNLAAGVLLVMFRPFRAGEYVDL----GGVAGTVLSVQIFS-TTMRTADGKIIVIPNGKIIAGNIIN 177 (286)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCEEEE----CCEEEEEEEEEeEE-EEEEcCCCCEEEEcchHhcCCeeEE
Confidence 999999999999999999999999999999999998 57999999999999 9999999999999999999999999
Q ss_pred ccCCCceEEEEEEeecC-CCHHHHHHHHHHHHHHHHcCCCccccccceEEEEEeecCCCCeeEEEEEEEEecCChhhHHH
Q 010731 308 LSQKTHWRIKTYLAISH-LDVHKVNSIVADMRKVLAKNPQVEQQRLHRRVFLENINPESQSLNILVSCFVKTSRFEEYLC 386 (502)
Q Consensus 308 ~sr~~~~~i~~~i~v~y-td~~~v~~i~~~l~~~l~~~~~i~~~~~~p~v~v~~~~~~~~~v~i~v~~~v~~~~~~~~~~ 386 (502)
||+.+.+|+.+.++++| +|+++++++ ++++++++|.+.++|. |.+.+.+++ ++++++++++|+++.+ +++
T Consensus 178 ~s~~~~rr~~~~v~V~y~~d~~~~~~i---l~~~~~~~~~vl~~p~-p~v~~~~~~--dssi~~~v~~wv~~~~---~~~ 248 (286)
T PRK10334 178 FSREPVRRNEFIIGVAYDSDIDQVKQI---LTNIIQSEDRILKDRE-MTVRLNELG--ASSINFVVRVWSNSGD---LQN 248 (286)
T ss_pred cCCCCeEEEEEEEEecCCCCHHHHHHH---HHHHHHhCCceecCCC-CEEEEEeee--CceEEEEEEEEEecch---hHH
Confidence 99988899999999999 699999998 7889999999998875 799999999 8899999999999854 678
Q ss_pred HHHHHHHHHHHHHHHCCCccCCCceEEEEecC
Q 010731 387 VKEAILLDLLHVISHHRARMATPIRTVQKIYS 418 (502)
Q Consensus 387 vr~~l~~~i~~~~~~~gI~~a~P~~~v~~~~~ 418 (502)
++++++++++++|+++||++|||+++++....
T Consensus 249 ~~~~~~~~I~~~f~~~gI~ip~p~~~v~~~~~ 280 (286)
T PRK10334 249 VYWDVLERIKREFDAAGISFPYPQMDVNFKRV 280 (286)
T ss_pred HHHHHHHHHHHHHHHCCCcCCCCCeEEEeccC
Confidence 99999999999999999999999999988654
No 2
>PRK11465 putative mechanosensitive channel protein; Provisional
Probab=100.00 E-value=2.2e-43 Score=387.08 Aligned_cols=290 Identities=13% Similarity=0.144 Sum_probs=227.7
Q ss_pred HHHHHhHHHHHHHHHHHHHHHhhccCCCCchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHhhc--cCCch
Q 010731 108 YILTSYLQPLLLWTGVTLICRELDPLVLPSETSQGVKQRVLNFVRSLSTVLAFAYCLSSLIQQ-IQKFLTEAN--DADST 184 (502)
Q Consensus 108 ~ll~~~~~Pl~l~l~~~~i~~al~~l~l~~~~~~~v~~~l~~~~~~l~~il~~~~~~~~li~~-~~~~~~~~~--~~~~~ 184 (502)
.+++.++ |+.+++++++++.++..+.++..........+...+..++++++++++.+.+.+. +.+++.+.. +..+.
T Consensus 425 ~~l~~lr-~l~~~~~vl~ll~a~~~l~l~~~~~~~~g~~~i~~l~~i~iil~i~~v~w~l~~~~ie~~l~~~~~~~~~~~ 503 (741)
T PRK11465 425 AALKTAR-ILTVCVAVMLLLNAWGLFDFWNWLQNGAGEKTVDILIRIALILFFSAVGWTVLASLIENRLASDIHGRPLPS 503 (741)
T ss_pred HHHHHHH-HHHHHHHHHHHHHHHHhcchHhhhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcchhhh
Confidence 5667777 9888888887887776554443111111122333333344444444444444442 233332221 11122
Q ss_pred hhhhhhHHHHHHHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCccCCcEEEEe
Q 010731 185 DARNMGFNFAGKAVYTAVWVAAVSLFMELLGFSTQRWLTAGGLGTVLLTLAGREIFTNFLSSVMIHATQPFVINEWIQTK 264 (502)
Q Consensus 185 ~~~~~~~~~l~~i~~~~v~vi~~~~iL~~lG~~~~~lla~~Gi~glalgfAaq~~l~N~~aGi~I~~~~Pf~VGD~I~i~ 264 (502)
...+++.+++++++++++++++++++|+.+|+++++++|++|++|+++|||+|++++|++||++|+++|||++||||++
T Consensus 504 ~r~~Tl~~ll~~~~~~~i~~i~~l~vL~~lGi~it~LlA~aGi~GlaiGfaaQ~~l~N~isGi~Il~e~pf~vGD~I~v- 582 (741)
T PRK11465 504 ARTRTLLTLFRNALAVIISTITIMIVLSEIGVNIAPLLAGAGALGLAISFGSQTLVKDIITGVFIQFENGMNTGDLVTI- 582 (741)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcCCCCEEEE-
Confidence 3456889999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred ecCcceEEEEEEEcceeEEEEEeCCCcEEEEeCcccccceEEEccCCCceEEEEEEeecC-CCHHHHHHHHHHHHHHHHc
Q 010731 265 IQGYEVSGTVEHVGWWSPTIIRGDDREAVHIPNHKFTVNVVRNLSQKTHWRIKTYLAISH-LDVHKVNSIVADMRKVLAK 343 (502)
Q Consensus 265 i~g~~~~G~Ve~I~l~~TT~irt~d~~~v~IPNs~l~~~~I~N~sr~~~~~i~~~i~v~y-td~~~v~~i~~~l~~~l~~ 343 (502)
+|++|+||+|++|+ |++|++||+.++|||+.+.+ |+||||. .++..++++|+| +|.++++++++++.+.+.+
T Consensus 583 ---~g~~GtVe~I~lRs-T~iRt~dg~~i~IPNs~i~~--v~N~Sr~-~~~~~v~v~V~Y~~Didka~~iL~ev~~el~~ 655 (741)
T PRK11465 583 ---GPLTGTVERMSIRS-VGVRQDTGAYHIIPWSSITT--FANFVRG-IGSVVANYDVDRHEDADKANQALKDAVAELME 655 (741)
T ss_pred ---CCeEEEEEEEeeeE-EEEEcCCCCEEEEECCccee--eEEeccC-ceEEEEEEEeCCCCCHHHHHHHHHHHHHHhhc
Confidence 67999999999999 99999999999999999974 9999985 567888999999 7999999998777777777
Q ss_pred CCCc----cccccceEEEEEeecCCCCeeEEEEEEEEecCChhhHHHHHHHHHHHHHHHHHHCCCccCCCceEE
Q 010731 344 NPQV----EQQRLHRRVFLENINPESQSLNILVSCFVKTSRFEEYLCVKEAILLDLLHVISHHRARMATPIRTV 413 (502)
Q Consensus 344 ~~~i----~~~~~~p~v~v~~~~~~~~~v~i~v~~~v~~~~~~~~~~vr~~l~~~i~~~~~~~gI~~a~P~~~v 413 (502)
+|++ .+++ +.+.+.+++ ++++++++++|+++ .++|.+++++++++++.|+++||++|+|+..+
T Consensus 656 dpe~~~~il~~p--~~vgV~~lg--dSsi~lrvr~~t~p---~~qw~v~rel~~~IK~~Fde~GIeIP~~tv~v 722 (741)
T PRK11465 656 NEEIRGLIIGEP--NFAGIVGLT--NTAFTLRVSFTTLP---LKQWTVRFALDSQVKKHFDLAGVRAPVQTYQV 722 (741)
T ss_pred CccccccccCCC--CeEEEEEec--CceEEEEEEEEECc---chHHHHHHHHHHHHHHHHHHCCCCCCCCceEe
Confidence 7764 3333 367889998 88999999999976 56799999999999999999999987665543
No 3
>PRK11281 hypothetical protein; Provisional
Probab=100.00 E-value=2.4e-40 Score=378.68 Aligned_cols=254 Identities=19% Similarity=0.207 Sum_probs=223.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhhccCCchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHhCCchHHHHHH
Q 010731 146 RVLNFVRSLSTVLAFAYCLSSLIQQIQKFL-TEANDADSTDARNMGFNFAGKAVYTAVWVAAVSLFMELLGFSTQRWLTA 224 (502)
Q Consensus 146 ~l~~~~~~l~~il~~~~~~~~li~~~~~~~-~~~~~~~~~~~~~~~~~~l~~i~~~~v~vi~~~~iL~~lG~~~~~lla~ 224 (502)
.+.+++..+ ++++++|++.+.+..+.+.+ .++...++ .....+.++++++++++++++++..+|++.+++.+.
T Consensus 835 tl~~Ll~al-lIl~i~~~l~r~l~~ll~~~~~~rl~l~~-----~~~~~i~~li~y~I~~i~iliaL~~lGi~~t~L~~l 908 (1113)
T PRK11281 835 TLGNLLFAL-IILVVTYVLVRNLPGLLEVLVLSRLNLRQ-----GTSYAITTLLTYIIIAVGAVTAFSTLGVSWDKLQWL 908 (1113)
T ss_pred eHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHhhccCCc-----hHHHHHHHHHHHHHHHHHHHHHHHHcCCChHHHHHH
Confidence 344555444 45677888888888765443 33322212 224667899999999999999999999999999999
Q ss_pred HHHHHHHHHHhhhhHHHHHHHHHHHHhcCCccCCcEEEEeecCcceEEEEEEEcceeEEEEEeCCCcEEEEeCcccccce
Q 010731 225 GGLGTVLLTLAGREIFTNFLSSVMIHATQPFVINEWIQTKIQGYEVSGTVEHVGWWSPTIIRGDDREAVHIPNHKFTVNV 304 (502)
Q Consensus 225 ~Gi~glalgfAaq~~l~N~~aGi~I~~~~Pf~VGD~I~i~i~g~~~~G~Ve~I~l~~TT~irt~d~~~v~IPNs~l~~~~ 304 (502)
+|++|+++|||+|++++||+||++|+++|||++||+|++ ++.+|+|++|++|+ |+++|+||+.++|||+.|.++.
T Consensus 909 ~gaLgVgIGfglQ~ilsNfISGiiIl~eRPfrIGD~I~I----~~~~G~V~~I~lRs-T~Irt~D~~~ViIPNs~~~t~~ 983 (1113)
T PRK11281 909 VAALSVGLGFGLQEIFANFVSGLIILFERPVRIGDTVTI----GTFSGTVSKIRIRA-TTITDFDRKEVIVPNKAFVTER 983 (1113)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcCCCCEEEE----CCEEEEEEEEEeEE-EEEEcCCCCEEEEechhhhcCc
Confidence 999999999999999999999999999999999999998 67999999999999 9999999999999999999999
Q ss_pred EEEccCCCc-eEEEEEEeecC-CCHHHHHHHHHHHHHHHHcCCCccccccceEEEEEeecCCCCeeEEEEEEEEecCChh
Q 010731 305 VRNLSQKTH-WRIKTYLAISH-LDVHKVNSIVADMRKVLAKNPQVEQQRLHRRVFLENINPESQSLNILVSCFVKTSRFE 382 (502)
Q Consensus 305 I~N~sr~~~-~~i~~~i~v~y-td~~~v~~i~~~l~~~l~~~~~i~~~~~~p~v~v~~~~~~~~~v~i~v~~~v~~~~~~ 382 (502)
|+|||.++. +|+.++++|+| +|+++++++ +.++++++|.+.++|. |.|++.+|+ ++++++++++|+++. .
T Consensus 984 IiN~S~~~~~~Rv~i~vgV~Y~sDi~~v~~i---L~eaa~~~p~Vl~~P~-P~V~~~~fg--dssi~~~lr~wv~~~--~ 1055 (1113)
T PRK11281 984 LINWSLSDTVTRVVIKVGVAYGSDLEKVREL---LLQAATENPRVMKEPE-PQVFFLNFG--ASTLDHELRLYVREL--G 1055 (1113)
T ss_pred eEeCCCCCcceEEEEEEEeCCCCCHHHHHHH---HHHHHHcCcccccCCC-CEEEEEecc--CceEEEEEEEEEcCH--h
Confidence 999999874 78999999999 799999988 7889999999998885 799999999 899999999999864 5
Q ss_pred hHHHHHHHHHHHHHHHHHHCCCccCCCceEEEEecC
Q 010731 383 EYLCVKEAILLDLLHVISHHRARMATPIRTVQKIYS 418 (502)
Q Consensus 383 ~~~~vr~~l~~~i~~~~~~~gI~~a~P~~~v~~~~~ 418 (502)
+++.++++++.+|++.|+++||++|||++++|+...
T Consensus 1056 ~~~~v~s~L~~~I~~~f~e~GIeIpfPq~~V~i~~~ 1091 (1113)
T PRK11281 1056 DRSPTVDELNRRIDRLFRENDINIAFNQLDVFLKNQ 1091 (1113)
T ss_pred hHHHHHHHHHHHHHHHHHHCCCcCCCCCeeEEecCC
Confidence 789999999999999999999999999999998764
No 4
>PRK10929 putative mechanosensitive channel protein; Provisional
Probab=100.00 E-value=3.1e-40 Score=376.41 Aligned_cols=252 Identities=15% Similarity=0.142 Sum_probs=222.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH-HHHhhccCCchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHhCCchHHHHHHHH
Q 010731 148 LNFVRSLSTVLAFAYCLSSLIQQIQK-FLTEANDADSTDARNMGFNFAGKAVYTAVWVAAVSLFMELLGFSTQRWLTAGG 226 (502)
Q Consensus 148 ~~~~~~l~~il~~~~~~~~li~~~~~-~~~~~~~~~~~~~~~~~~~~l~~i~~~~v~vi~~~~iL~~lG~~~~~lla~~G 226 (502)
.+++.++ ++++++|++.+.+..+.+ .+.++.+.++ ....++.+++++++++++++++++.+|++.+++.+.+|
T Consensus 834 ~~ll~Al-lIliv~~~l~r~l~~lle~~l~~~~~l~~-----~~~~~i~~l~~y~I~~ig~l~~L~~lGI~~t~l~al~g 907 (1109)
T PRK10929 834 GSVLIAI-LVFIITTQLVRNLPALLELALLQHLDLTP-----GTGYAITTITKYLLMLIGGLVGFSMIGIEWSKLQWLVA 907 (1109)
T ss_pred HHHHHHH-HHHHHHHHHHHHHHHHHHHHHhhhcCCCh-----hHHHHHHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHH
Confidence 3444444 455667777777776554 3434433222 33577889999999999999999999999999999999
Q ss_pred HHHHHHHHhhhhHHHHHHHHHHHHhcCCccCCcEEEEeecCcceEEEEEEEcceeEEEEEeCCCcEEEEeCcccccceEE
Q 010731 227 LGTVLLTLAGREIFTNFLSSVMIHATQPFVINEWIQTKIQGYEVSGTVEHVGWWSPTIIRGDDREAVHIPNHKFTVNVVR 306 (502)
Q Consensus 227 i~glalgfAaq~~l~N~~aGi~I~~~~Pf~VGD~I~i~i~g~~~~G~Ve~I~l~~TT~irt~d~~~v~IPNs~l~~~~I~ 306 (502)
++|+++|||+|++++||+||++|+++|||++||+|++ +|.+|+|++||+|+ |+++++||+.++|||+.|.++.|+
T Consensus 908 alGVgIGfAlQ~ilsNfiSGIiIL~erPfrVGD~I~I----~~~~GtV~~I~lRs-T~Irt~Dg~~IiIPNs~~it~~Ii 982 (1109)
T PRK10929 908 ALGVGLGFGLQEIFANFISGLIILFEKPIRIGDTVTI----RDLTGSVTKINTRA-TTISDWDRKEIIVPNKAFITEQFI 982 (1109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCEEEE----CCEEEEEEEEeeeE-EEEEeCCCCEEEEEChhhhcCceE
Confidence 9999999999999999999999999999999999998 67999999999999 999999999999999999999999
Q ss_pred EccCCCc-eEEEEEEeecC-CCHHHHHHHHHHHHHHHHcCCCccccccceEEEEEeecCCCCeeEEEEEEEEecCChhhH
Q 010731 307 NLSQKTH-WRIKTYLAISH-LDVHKVNSIVADMRKVLAKNPQVEQQRLHRRVFLENINPESQSLNILVSCFVKTSRFEEY 384 (502)
Q Consensus 307 N~sr~~~-~~i~~~i~v~y-td~~~v~~i~~~l~~~l~~~~~i~~~~~~p~v~v~~~~~~~~~v~i~v~~~v~~~~~~~~ 384 (502)
|||+++. +|+.+.++|+| +|+++++++ +.++++++|.+.++|. |.|++.+++ ++++++++++|++.. .++
T Consensus 983 N~S~~d~~~Rv~i~VgV~Y~sDie~v~~i---L~eaa~~~~~VL~~P~-P~V~~~~fg--dssi~~elr~wv~~~--~~~ 1054 (1109)
T PRK10929 983 NWSLSDSVTRVVLTIPAPADANSEEVTEI---LLTAARRCSLVLDNPA-PEVFLVDLQ--QGIQIFELRIYAAEM--GHR 1054 (1109)
T ss_pred ecCCCCcceEEEEEEEeCCCCCHHHHHHH---HHHHHHhCccccCCCC-CEEEEEecC--CCceEEEEEEEEcCh--hhH
Confidence 9999875 78999999999 799999998 7889999999988775 799999998 789999999999753 568
Q ss_pred HHHHHHHHHHHHHHHHHCCCccCCCceEEEEecC
Q 010731 385 LCVKEAILLDLLHVISHHRARMATPIRTVQKIYS 418 (502)
Q Consensus 385 ~~vr~~l~~~i~~~~~~~gI~~a~P~~~v~~~~~ 418 (502)
+.++++++.+|++.|+++||++|||++++|+...
T Consensus 1055 ~~v~~el~~~I~~~F~~~GIeIPfPq~~v~i~~~ 1088 (1109)
T PRK10929 1055 MPLRHEIHQLILAGFREHGIDMPFPPFQMRLESL 1088 (1109)
T ss_pred HHHHHHHHHHHHHHHHHCCCcCCCCCeEEEeecC
Confidence 9999999999999999999999999999999864
No 5
>COG3264 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]
Probab=100.00 E-value=2.5e-36 Score=328.81 Aligned_cols=250 Identities=19% Similarity=0.226 Sum_probs=223.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH-HHHHhhccCCchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHhCCchHHHHHHHHH
Q 010731 149 NFVRSLSTVLAFAYCLSSLIQQIQ-KFLTEANDADSTDARNMGFNFAGKAVYTAVWVAAVSLFMELLGFSTQRWLTAGGL 227 (502)
Q Consensus 149 ~~~~~l~~il~~~~~~~~li~~~~-~~~~~~~~~~~~~~~~~~~~~l~~i~~~~v~vi~~~~iL~~lG~~~~~lla~~Gi 227 (502)
+++..+ +++++++++.+.+.... ..++.+.+.+... -..+.+++.+++..+++++.++.+|+|.+++--.+|.
T Consensus 560 ~ll~av-l~~~~~~~l~r~~~~~L~~~vl~r~~~~~G~-----r~~I~t~~~Y~~~~i~~l~~lS~~Gi~lssL~~~~gA 633 (835)
T COG3264 560 ALLQAV-LLFLITYVLTRNLPGWLEVRVLQRLDLDAGT-----RYSITTLLGYLLIAIGGLVGLSTLGIDLSSLQWLAGA 633 (835)
T ss_pred HHHHHH-HHHHHHHHHHHHHHHHHHHHHHHhcccCcch-----HHHHHHHHHHHHHHHHHHHHHHHcCcChHHHHHHHHH
Confidence 334333 34556677777776654 4667776644432 3457899999999999999999999999999999999
Q ss_pred HHHHHHHhhhhHHHHHHHHHHHHhcCCccCCcEEEEeecCcceEEEEEEEcceeEEEEEeCCCcEEEEeCcccccceEEE
Q 010731 228 GTVLLTLAGREIFTNFLSSVMIHATQPFVINEWIQTKIQGYEVSGTVEHVGWWSPTIIRGDDREAVHIPNHKFTVNVVRN 307 (502)
Q Consensus 228 ~glalgfAaq~~l~N~~aGi~I~~~~Pf~VGD~I~i~i~g~~~~G~Ve~I~l~~TT~irt~d~~~v~IPNs~l~~~~I~N 307 (502)
.|+.+||+.|++++||+||++|+++|||||||||++ |+++|+|.+|+.|+ |.|+|+||+-++|||+.|.++.|.|
T Consensus 634 LsvGiGFGLQ~I~~NFVSGlIiL~ErpvkvGD~It~----g~~~G~V~~I~vRA-T~I~~fd~~~vIVPNs~fI~~qV~N 708 (835)
T COG3264 634 LSVGLGFGLQEIVSNFVSGLIILFERPVKVGDTVTI----GTVSGTVRKISVRA-TTIRTFDRKEVIVPNSAFITEQVIN 708 (835)
T ss_pred hhhhhchhHHHHHHHhhhhhhhheecCcccCCEEEE----CCceEEEEEEEeeE-EEEEeCCCCeEEeccHHHHhhheee
Confidence 999999999999999999999999999999999998 78999999999999 9999999999999999999999999
Q ss_pred ccCCC-ceEEEEEEeecC-CCHHHHHHHHHHHHHHHHcCCCccccccceEEEEEeecCCCCeeEEEEEEEEecCChhhHH
Q 010731 308 LSQKT-HWRIKTYLAISH-LDVHKVNSIVADMRKVLAKNPQVEQQRLHRRVFLENINPESQSLNILVSCFVKTSRFEEYL 385 (502)
Q Consensus 308 ~sr~~-~~~i~~~i~v~y-td~~~v~~i~~~l~~~l~~~~~i~~~~~~p~v~v~~~~~~~~~v~i~v~~~v~~~~~~~~~ 385 (502)
||.++ ..|+.+.++++| +|+++++++ +.+..++||.+.++|. |.|++.+|+ ++++++++++|+..... ..
T Consensus 709 Ws~~~~~~R~~i~v~vay~sD~~~V~~~---Ll~~A~~~p~Vl~~P~-P~v~f~~fg--~s~L~fELr~~v~~~~~--~~ 780 (835)
T COG3264 709 WSLRDTTTRLVIPVGVAYGSDPELVREL---LLEAAREHPRVLKDPA-PEVFFTAFG--ASSLDFELRVYVAELGD--RM 780 (835)
T ss_pred eeccCceEEEEEEecccCCCCHHHHHHH---HHHHHHhCCCccCCCC-CeeEeeccc--ccceeEEEEEEeecccc--cc
Confidence 99987 689999999999 799999998 8999999999999986 799999999 88999999999998743 34
Q ss_pred HHHHHHHHHHHHHHHHCCCccCCCceEEEEec
Q 010731 386 CVKEAILLDLLHVISHHRARMATPIRTVQKIY 417 (502)
Q Consensus 386 ~vr~~l~~~i~~~~~~~gI~~a~P~~~v~~~~ 417 (502)
.++++++..|.+.|+||||++|||++.+++..
T Consensus 781 ~~~~~l~~~I~~~fre~gI~ipfpq~~v~l~~ 812 (835)
T COG3264 781 PVRSELNRAILDRFRENGIEIPFPQREVRLKN 812 (835)
T ss_pred chHHHHHHHHHHHHHHcCCCCCCchHheEecC
Confidence 59999999999999999999999999999886
No 6
>PF00924 MS_channel: Mechanosensitive ion channel; InterPro: IPR006685 Mechanosensitive (MS) channels provide protection against hypo-osmotic shock, responding both to stretching of the cell membrane and to membrane depolarisation. They are present in the membranes of organisms from the three domains of life: bacteria, archaea, and eukarya []. There are two families of MS channels: large-conductance MS channels (MscL) and small-conductance MS channels (MscS or YGGB). The pressure threshold for MscS opening is 50% that of MscL []. The MscS family is much larger and more variable in size and sequence than the MscL family. Much of the diversity in MscS proteins occurs in the size of the transmembrane regions, which ranges from three to eleven transmembrane helices, although the three C-terminal helices are conserved. This family contains sequences form the MscS family of proteins. MscS folds as a homo-heptamer with a cylindrical shape, and can be divided into transmembrane and extramembrane regions: an N-terminal periplasmic region, a transmembrane region, and a C-terminal cytoplasmic region (middle and C-terminal domains). The transmembrane region forms a channel through the membrane that opens into a chamber enclosed by the extramembrane portion, the latter connecting to the cytoplasm through distinct portals [].; GO: 0055085 transmembrane transport, 0016020 membrane; PDB: 2OAU_E 2VV5_F.
Probab=100.00 E-value=2.9e-37 Score=296.29 Aligned_cols=203 Identities=24% Similarity=0.413 Sum_probs=169.6
Q ss_pred HHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCccCCcEEEEeecCcceEEEEE
Q 010731 196 KAVYTAVWVAAVSLFMELLGFSTQRWLTAGGLGTVLLTLAGREIFTNFLSSVMIHATQPFVINEWIQTKIQGYEVSGTVE 275 (502)
Q Consensus 196 ~i~~~~v~vi~~~~iL~~lG~~~~~lla~~Gi~glalgfAaq~~l~N~~aGi~I~~~~Pf~VGD~I~i~i~g~~~~G~Ve 275 (502)
+++.++++++++++++..+|.+.+++++++|++|+++|||+|++++|++||++|++++||++||||++ ++..|+|+
T Consensus 2 ~i~~~~~~~~~~~~~l~~~g~~~~~l~~~~g~~~~~i~f~~~~~~~n~~~gi~i~~~~pf~vGD~I~i----~~~~G~V~ 77 (206)
T PF00924_consen 2 KIIRIVIIIVGILIILSILGIDVSSLLASLGVLGLAIGFAFQDIISNFISGIIILFERPFKVGDRIEI----GGVEGRVE 77 (206)
T ss_dssp -HHHHHHHHHHHHHHHHCCT--SCCHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHCC-SS-TT-EEES----SS-EEEEE
T ss_pred hHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCccCCCEEEE----EEeehHHH
Confidence 67888999999999999999999999999999999999999999999999999999999999999997 57999999
Q ss_pred EEcceeEEEEEeCCCcEEEEeCcccccceEEEccC-CCceEEEEEEeecC-CCHHHHHHHHHHHHHHHHcCCCccccccc
Q 010731 276 HVGWWSPTIIRGDDREAVHIPNHKFTVNVVRNLSQ-KTHWRIKTYLAISH-LDVHKVNSIVADMRKVLAKNPQVEQQRLH 353 (502)
Q Consensus 276 ~I~l~~TT~irt~d~~~v~IPNs~l~~~~I~N~sr-~~~~~i~~~i~v~y-td~~~v~~i~~~l~~~l~~~~~i~~~~~~ 353 (502)
+|||++ |++|++||+.++|||+.+.+++|.|+|+ ++.++..+.+.++| +|+++++++.+++.+.++++|.....+.
T Consensus 78 ~I~l~~-t~l~~~~g~~v~IPNs~l~~~~i~N~s~~~~~~~~~v~~~v~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~- 155 (206)
T PF00924_consen 78 EIGLRS-TRLRTWDGEIVIIPNSKLISSPIVNYSRSSPYRRVVVEIPVDYDTDPEKIEELREKIEEALRSNPYIFKEPE- 155 (206)
T ss_dssp EE-SSE-EEEEETTS-EEEEEHHHHHCS-EEETTT-SSEEEEEEEEEE-TTS----HHHHHHHHHHHHHH-TTC-TTS--
T ss_pred hcCcce-eeeecCCCCEEEEEchheeeEEEEEeeccCCceeeeeeeeEecCCCchHHHHHHHHHHHHHhcCchhhcCCC-
Confidence 999999 9999999999999999999999999999 77899999999999 5889999999999999999998887553
Q ss_pred eEEEEEeecCCCCeeEEEEEEEEecCChhhHHHHHHHHHHHHHHHHHHCCCcc
Q 010731 354 RRVFLENINPESQSLNILVSCFVKTSRFEEYLCVKEAILLDLLHVISHHRARM 406 (502)
Q Consensus 354 p~v~v~~~~~~~~~v~i~v~~~v~~~~~~~~~~vr~~l~~~i~~~~~~~gI~~ 406 (502)
|.+.+..++ ++++.++++|+++..++.+++.+|++++.++++.+++|||++
T Consensus 156 ~~~~~~~~~--~~~~~~~i~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~gI~~ 206 (206)
T PF00924_consen 156 PRVVVDEIG--DSSLEFRIRVYVKNQDPEKYWEIRSEIRKRILEILEEHGIEI 206 (206)
T ss_dssp EEEEEEEE---SSSEEEEEEEEEEC---CCHHHHHHHHHHHHHHHHHHHT---
T ss_pred CeEEEcccc--CCceEEEEEEEEEeCchhhHHHHHHHHHHHHHHHHHHccCCC
Confidence 689999988 789999999999997788999999999999999999999985
No 7
>COG0668 MscS Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]
Probab=100.00 E-value=1.9e-34 Score=293.27 Aligned_cols=208 Identities=23% Similarity=0.392 Sum_probs=193.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCccCCcEEEEeecCc-ceE
Q 010731 193 FAGKAVYTAVWVAAVSLFMELLGFSTQRWLTAGGLGTVLLTLAGREIFTNFLSSVMIHATQPFVINEWIQTKIQGY-EVS 271 (502)
Q Consensus 193 ~l~~i~~~~v~vi~~~~iL~~lG~~~~~lla~~Gi~glalgfAaq~~l~N~~aGi~I~~~~Pf~VGD~I~i~i~g~-~~~ 271 (502)
++.++.++++++++++.++..+|++++++++++|++|+++|||+|++++|+++|+++++++||++||||++ + +.+
T Consensus 86 ~~~~~~~~~~~~~~~~~~l~~~g~~~~~lla~~G~~glaigla~q~~~~n~~~Gi~il~~~~f~vGD~I~i----~~~~~ 161 (316)
T COG0668 86 FLSNLLRILILVVALLIVLSVLGVQVTSLLAGLGALGLAIGLALQDLLSNLIAGIFLLLERPFKVGDWIEI----GSGVE 161 (316)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhHhheecCcCcCCEEEE----CCCce
Confidence 78999999999999999999999999999999999999999999999999999999999999999999998 6 699
Q ss_pred EEEEEEcceeEEEEEeCCCcEEEEeCcccccceEEEccCCCceEEEEEEeecC-CCHHHHHHHHHHHHHHHHcCCCccc-
Q 010731 272 GTVEHVGWWSPTIIRGDDREAVHIPNHKFTVNVVRNLSQKTHWRIKTYLAISH-LDVHKVNSIVADMRKVLAKNPQVEQ- 349 (502)
Q Consensus 272 G~Ve~I~l~~TT~irt~d~~~v~IPNs~l~~~~I~N~sr~~~~~i~~~i~v~y-td~~~v~~i~~~l~~~l~~~~~i~~- 349 (502)
|+|++|++++ |++|++||+.+++|||.+.++.|.|+|+...+++.+.++++| +|.++++++ +++.++..+....
T Consensus 162 G~V~~i~~~~-T~ir~~dg~~v~iPNs~i~~~~i~N~s~~~~~~~~~~v~v~~~~~~~~~~~i---~~~~~~~~~~~~~~ 237 (316)
T COG0668 162 GTVEDIGLRS-TTIRTLDGRIVTIPNSKLFTANVVNYSREPGRRVEVKVGVAYDSDLEKALKI---LKEVLEELPEVLKI 237 (316)
T ss_pred EEEEEEEEEE-EEEEcCCCCEEEccchhhccCceEeCCCCCcEEEEEEEeeccCCCHHHHHHH---HHHHHHhccccccc
Confidence 9999999999 999999999999999999999999999998888999999999 799999998 5555555555542
Q ss_pred cccceEEEEEeecCCCCeeEEEEEEEEecCChhhHHHHHHHHHHHHHHHHHHCCCccCCCceEEE
Q 010731 350 QRLHRRVFLENINPESQSLNILVSCFVKTSRFEEYLCVKEAILLDLLHVISHHRARMATPIRTVQ 414 (502)
Q Consensus 350 ~~~~p~v~v~~~~~~~~~v~i~v~~~v~~~~~~~~~~vr~~l~~~i~~~~~~~gI~~a~P~~~v~ 414 (502)
++ +|.+++.+++ ++++.+.+++|+++.+ ++..+++++..+++.++++|+++|+|++.++
T Consensus 238 ~~-~~~v~~~~~~--~~~~~i~v~~~t~~~~---~~~~~~~~~~~i~~~~~~~gi~i~~p~~~~~ 296 (316)
T COG0668 238 EP-EPVIGVSELG--DSGINIRVRFWTNPED---LWSVQRELNLRIKEALEEAGIEIPYPQQSVL 296 (316)
T ss_pred CC-CcEEEEeecc--CCceEEEEEEEecchh---HHHHHHHHHHHHHHHHHHcCCCCCCCCeeEE
Confidence 44 3689999999 7899999999999854 8999999999999999999999999999987
No 8
>KOG4629 consensus Predicted mechanosensitive ion channel [Cell wall/membrane/envelope biogenesis]
Probab=99.82 E-value=7.6e-20 Score=200.27 Aligned_cols=224 Identities=16% Similarity=0.208 Sum_probs=193.4
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHHhhhhHHHHHHHHHH-HHhcCCccCCcEEEEee
Q 010731 187 RNMGFNFAGKAVYTAVWVAAVSLFMELLGFSTQRWLTAGGLGTVLLTLAGREIFTNFLSSVM-IHATQPFVINEWIQTKI 265 (502)
Q Consensus 187 ~~~~~~~l~~i~~~~v~vi~~~~iL~~lG~~~~~lla~~Gi~glalgfAaq~~l~N~~aGi~-I~~~~Pf~VGD~I~i~i 265 (502)
.++.+.-+.+++.+++.++++++.+-.+|++.+.+++..+-.-+++.|.+.+++++++.+++ +++.+||++||+|.+
T Consensus 476 ~~taV~kL~~il~~Iv~vv~~~i~lil~~i~~~~~l~~~~sq~v~l~fif~~~~k~~~esiIFlfv~HPyDvGDRv~V-- 553 (714)
T KOG4629|consen 476 TKTAVNKLDRILNFIVAVVLLVIWLILLGINTSKLLLVISSQLVGLAFIFGNIVKELLESIIFLFVMHPYDVGDRVVV-- 553 (714)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHcccceeeeeeecccceeeeeehhhHHHHHHHHHhheeecCCCCCCCeEEE--
Confidence 34678888899999998888888899999999999998888889999999999999999764 667899999999997
Q ss_pred cCcceEEEEEEEcceeEEEEEeCCCcEEEEeCcccccceEEEccCCCceEEEEEEeecC-CCHHHHHHHHHHHHHHHHcC
Q 010731 266 QGYEVSGTVEHVGWWSPTIIRGDDREAVHIPNHKFTVNVVRNLSQKTHWRIKTYLAISH-LDVHKVNSIVADMRKVLAKN 344 (502)
Q Consensus 266 ~g~~~~G~Ve~I~l~~TT~irt~d~~~v~IPNs~l~~~~I~N~sr~~~~~i~~~i~v~y-td~~~v~~i~~~l~~~l~~~ 344 (502)
|| +.-.|+++++.+ |....+||+.+++|||.+.+.+|.|+.|++.+...+++.++. |+.++++.+.+.+.++++++
T Consensus 554 Dg--~~~vVeemnLls-TvF~~~dg~kI~~PNS~L~~k~I~N~rRS~~~~~~v~f~i~~~T~~~Ki~~Lk~rI~~ylks~ 630 (714)
T KOG4629|consen 554 DG--VNLVVEEMNLLS-TVFLRVDGRKIFIPNSVLWTKAISNYRRSPDMGDEVEFLISSSTPFEKIERLKERIAEYLKSS 630 (714)
T ss_pred ec--eEEEEEEeccce-EEEEEECCeEEEeecHHHHhhhhhhhhcCccccccEEEEecCCCCHHHHHHHHHHHHHHHhcC
Confidence 54 899999999999 999999999999999999999999999999999999999999 79999999999999999999
Q ss_pred CCccccccceEEEEEeecCCCC-eeEEEEEEEEecCChhhHHHHHHHHHHHHHHHHHHCCCccCCCceEEEEec
Q 010731 345 PQVEQQRLHRRVFLENINPESQ-SLNILVSCFVKTSRFEEYLCVKEAILLDLLHVISHHRARMATPIRTVQKIY 417 (502)
Q Consensus 345 ~~i~~~~~~p~v~v~~~~~~~~-~v~i~v~~~v~~~~~~~~~~vr~~l~~~i~~~~~~~gI~~a~P~~~v~~~~ 417 (502)
|+..... +.+.+.++.+.++ .+.+.+....+.+|..+.|..|.++...+.+.+++.||+.-++++++....
T Consensus 631 ~~~~~p~--~~~~i~~~e~~n~v~i~v~~~h~~n~Qd~~~~~~Rr~~~~~~l~~~~~eLdI~y~l~p~~in~~~ 702 (714)
T KOG4629|consen 631 PDDYYPD--LMVVIEEIEDLNSVKICVVVQHKINFQDMKERWSRRTEFVSALTKIMRELDIEYTLYPLDINLKN 702 (714)
T ss_pred ccccccc--hhhHHHhhhhcCcceEEEEEEeecchhhHHHHHhhHHHHHHHHHHHHHHcCcceeecCcchhhhc
Confidence 9877322 3667777664322 455556666777888899999999999999999999999866666554433
No 9
>PRK05886 yajC preprotein translocase subunit YajC; Validated
Probab=73.98 E-value=15 Score=31.95 Aligned_cols=37 Identities=5% Similarity=-0.089 Sum_probs=28.1
Q ss_pred ccCCcEEEEeecCcceEEEEEEEcceeEEEEEeCCCcEEEE
Q 010731 255 FVINEWIQTKIQGYEVSGTVEHVGWWSPTIIRGDDREAVHI 295 (502)
Q Consensus 255 f~VGD~I~i~i~g~~~~G~Ve~I~l~~TT~irt~d~~~v~I 295 (502)
.++||.|.. + ||..|+|.+|+=-+ ..+...+|..+.+
T Consensus 39 Lk~GD~VvT-~--gGi~G~V~~I~d~~-v~leia~gv~i~~ 75 (109)
T PRK05886 39 LQPGDRVHT-T--SGLQATIVGITDDT-VDLEIAPGVVTTW 75 (109)
T ss_pred cCCCCEEEE-C--CCeEEEEEEEeCCE-EEEEECCCeEEEE
Confidence 699999997 2 46999999998654 7777666655543
No 10
>PF12794 MscS_TM: Mechanosensitive ion channel inner membrane domain 1
Probab=71.14 E-value=1.2e+02 Score=31.55 Aligned_cols=29 Identities=14% Similarity=0.246 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHHHHHH-HHHHHhCCchHH
Q 010731 192 NFAGKAVYTAVWVAAVS-LFMELLGFSTQR 220 (502)
Q Consensus 192 ~~l~~i~~~~v~vi~~~-~iL~~lG~~~~~ 220 (502)
+.++++...++.++-++ +++..+|+--++
T Consensus 194 ~~~~~l~~~~li~~Pl~li~la~~GY~yTA 223 (340)
T PF12794_consen 194 HRLRYLWWPLLILAPLALIVLALLGYYYTA 223 (340)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Confidence 44556555554444333 445566775443
No 11
>PRK05585 yajC preprotein translocase subunit YajC; Validated
Probab=69.96 E-value=12 Score=32.24 Aligned_cols=40 Identities=20% Similarity=0.146 Sum_probs=30.9
Q ss_pred ccCCcEEEEeecCcceEEEEEEEcceeEEEEEeCCCcEEEEeCc
Q 010731 255 FVINEWIQTKIQGYEVSGTVEHVGWWSPTIIRGDDREAVHIPNH 298 (502)
Q Consensus 255 f~VGD~I~i~i~g~~~~G~Ve~I~l~~TT~irt~d~~~v~IPNs 298 (502)
.++||+|.. + +|..|+|.+|+=-+ ..++..+|..+.+=-+
T Consensus 53 Lk~Gd~VvT-~--gGi~G~Vv~i~~~~-v~lei~~g~~i~~~r~ 92 (106)
T PRK05585 53 LAKGDEVVT-N--GGIIGKVTKVSEDF-VIIELNDDTEIKIQKS 92 (106)
T ss_pred cCCCCEEEE-C--CCeEEEEEEEeCCE-EEEEECCCeEEEEEhH
Confidence 689999987 3 46999999998765 8888888866655433
No 12
>PRK10263 DNA translocase FtsK; Provisional
Probab=69.65 E-value=1.5e+02 Score=36.48 Aligned_cols=10 Identities=30% Similarity=0.760 Sum_probs=5.6
Q ss_pred hchhhHHHHh
Q 010731 486 HRLDWYQLLT 495 (502)
Q Consensus 486 ~~~~~~~~~~ 495 (502)
.+-+||+=.+
T Consensus 522 ~~~~~~~~~~ 531 (1355)
T PRK10263 522 QLAAWYQPIP 531 (1355)
T ss_pred cccccccCCC
Confidence 3457776543
No 13
>TIGR00739 yajC preprotein translocase, YajC subunit. While this protein is part of the preprotein translocase in Escherichia coli, it is not essential for viability or protein secretion. The N-terminus region contains a predicted membrane-spanning region followed by a region consisting almost entirely of residues with charged (acidic, basic, or zwitterionic) side chains. This small protein is about 100 residues in length, and is restricted to bacteria; however, this protein is absent from some lineages, including spirochetes and Mycoplasmas.
Probab=67.84 E-value=16 Score=30.11 Aligned_cols=37 Identities=16% Similarity=0.182 Sum_probs=28.8
Q ss_pred ccCCcEEEEeecCcceEEEEEEEcceeEEEEEeCCCcEEEE
Q 010731 255 FVINEWIQTKIQGYEVSGTVEHVGWWSPTIIRGDDREAVHI 295 (502)
Q Consensus 255 f~VGD~I~i~i~g~~~~G~Ve~I~l~~TT~irt~d~~~v~I 295 (502)
.++||+|.. . +|..|+|.+|+=-+ ..++..+|..+.+
T Consensus 38 L~~Gd~VvT--~-gGi~G~V~~i~d~~-v~vei~~g~~i~~ 74 (84)
T TIGR00739 38 LKKGDKVLT--I-GGIIGTVTKIAENT-IVIELNDNTEITF 74 (84)
T ss_pred CCCCCEEEE--C-CCeEEEEEEEeCCE-EEEEECCCeEEEE
Confidence 799999997 2 46999999998765 7777776655544
No 14
>smart00739 KOW KOW (Kyprides, Ouzounis, Woese) motif. Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.
Probab=67.22 E-value=9.6 Score=23.81 Aligned_cols=24 Identities=25% Similarity=0.387 Sum_probs=16.9
Q ss_pred CccCCcEEEEeecC--cceEEEEEEEc
Q 010731 254 PFVINEWIQTKIQG--YEVSGTVEHVG 278 (502)
Q Consensus 254 Pf~VGD~I~i~i~g--~~~~G~Ve~I~ 278 (502)
+|++||.|.+ ++| .+..|.|.++.
T Consensus 1 ~~~~G~~V~I-~~G~~~g~~g~i~~i~ 26 (28)
T smart00739 1 KFEVGDTVRV-IAGPFKGKVGKVLEVD 26 (28)
T ss_pred CCCCCCEEEE-eECCCCCcEEEEEEEc
Confidence 5789999998 454 24567777764
No 15
>PRK10334 mechanosensitive channel MscS; Provisional
Probab=65.19 E-value=1.6e+02 Score=29.87 Aligned_cols=27 Identities=7% Similarity=0.062 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 010731 67 RLIPAAALVAFAAWGLVPLVRLGRTIF 93 (502)
Q Consensus 67 ~~l~al~i~~~a~~~~~~l~r~i~r~~ 93 (502)
+++.+++++++++++.+++.+.+.+.+
T Consensus 30 ~i~~al~il~~~~~~~~~i~~~~~~~~ 56 (286)
T PRK10334 30 NIVAALAIIIVGLIIARMISNAVNRLM 56 (286)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467777777777777666666665544
No 16
>COG1862 YajC Preprotein translocase subunit YajC [Intracellular trafficking and secretion]
Probab=62.34 E-value=34 Score=29.12 Aligned_cols=42 Identities=21% Similarity=0.185 Sum_probs=31.2
Q ss_pred ccCCcEEEEeecCcceEEEEEEEcceeEEEEEeCCCcEEEEeCccc
Q 010731 255 FVINEWIQTKIQGYEVSGTVEHVGWWSPTIIRGDDREAVHIPNHKF 300 (502)
Q Consensus 255 f~VGD~I~i~i~g~~~~G~Ve~I~l~~TT~irt~d~~~v~IPNs~l 300 (502)
.+.||.|.. + ||..|+|.+|+=.. ..|...|+..+.+--+.+
T Consensus 44 L~kGD~VvT-~--gGi~G~V~~v~d~~-v~I~l~~~~~i~~~k~aI 85 (97)
T COG1862 44 LKKGDEVVT-I--GGIVGTVTKVGDDT-VEIELGDGTKIKFEKEAI 85 (97)
T ss_pred ccCCCEEEE-c--CCeEEEEEEEecCc-EEEEECCCeEEEEEHHHH
Confidence 689999997 2 46999999999876 667666777666544433
No 17
>PF09953 DUF2187: Uncharacterized protein conserved in bacteria (DUF2187); InterPro: IPR018690 This family consists of various hypothetical bacterial proteins with known function. It includes the uncharacterised YkvS protein from Bacillus subtilis.
Probab=59.77 E-value=15 Score=28.03 Aligned_cols=28 Identities=29% Similarity=0.230 Sum_probs=21.7
Q ss_pred ccCCcEEEEeecCcceEEEEEEEcceeEEEEE
Q 010731 255 FVINEWIQTKIQGYEVSGTVEHVGWWSPTIIR 286 (502)
Q Consensus 255 f~VGD~I~i~i~g~~~~G~Ve~I~l~~TT~ir 286 (502)
-.+||+|+++ .+.+|+|+.+.=.| +.+.
T Consensus 4 a~vGdiIefk---~g~~G~V~kv~eNS-VIVd 31 (57)
T PF09953_consen 4 AKVGDIIEFK---DGFTGIVEKVYENS-VIVD 31 (57)
T ss_pred cccCcEEEEc---CCcEEEEEEEecCc-EEEE
Confidence 4699999984 35999999998766 5544
No 18
>PF12961 DUF3850: Domain of Unknown Function with PDB structure (DUF3850)
Probab=59.17 E-value=21 Score=28.66 Aligned_cols=31 Identities=10% Similarity=0.077 Sum_probs=22.6
Q ss_pred hcCCccCCcEEEEe-ecCcceEEEEEEEccee
Q 010731 251 ATQPFVINEWIQTK-IQGYEVSGTVEHVGWWS 281 (502)
Q Consensus 251 ~~~Pf~VGD~I~i~-i~g~~~~G~Ve~I~l~~ 281 (502)
-+|.|+|||.+.+. .++++.+|+....-+.+
T Consensus 25 NDRdf~VGD~L~L~E~~~~~YTGr~~~~~Ity 56 (72)
T PF12961_consen 25 NDRDFQVGDILVLREWDNGEYTGREIEAEITY 56 (72)
T ss_pred cCCCCCCCCEEEEEEecCCCccccEEEEEEEE
Confidence 46899999999984 45456778776666655
No 19
>PF05552 TM_helix: Conserved TM helix; InterPro: IPR008910 This alignment represents a conserved transmembrane helix as well as some flanking sequence. It is often found in association with a Mechanosensitive (MS) channel IPR006685 from INTERPRO.; PDB: 2VV5_F 2OAU_E.
Probab=57.34 E-value=27 Score=25.96 Aligned_cols=31 Identities=13% Similarity=0.228 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 010731 65 ILRLIPAAALVAFAAWGLVPLVRLGRTIFLN 95 (502)
Q Consensus 65 ~~~~l~al~i~~~a~~~~~~l~r~i~r~~~~ 95 (502)
..+++.|++++++++++.+++.+.+.|.+.+
T Consensus 15 lP~iv~AilIl~vG~~va~~v~~~~~~~l~~ 45 (53)
T PF05552_consen 15 LPNIVGAILILIVGWWVAKFVRKLVRRLLEK 45 (53)
T ss_dssp HCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3468999999999999988888888776653
No 20
>PF14801 GCD14_N: tRNA methyltransferase complex GCD14 subunit N-term; PDB: 1I9G_A.
Probab=56.33 E-value=6.2 Score=29.71 Aligned_cols=24 Identities=17% Similarity=0.304 Sum_probs=11.0
Q ss_pred cCCccCCcEEEEeecCcceEEEEEEEcc
Q 010731 252 TQPFVINEWIQTKIQGYEVSGTVEHVGW 279 (502)
Q Consensus 252 ~~Pf~VGD~I~i~i~g~~~~G~Ve~I~l 279 (502)
..||+.||+|++ -+..|+---|.|
T Consensus 3 ~Gpf~~GdrVQl----TD~Kgr~~Ti~L 26 (54)
T PF14801_consen 3 RGPFRAGDRVQL----TDPKGRKHTITL 26 (54)
T ss_dssp --S--TT-EEEE----EETT--EEEEE-
T ss_pred cCCCCCCCEEEE----ccCCCCeeeEEE
Confidence 359999999998 345666544433
No 21
>PF00467 KOW: KOW motif; InterPro: IPR005824 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. The KOW (Kyprides, Ouzounis, Woese) motif is found in a variety of ribosomal proteins and the bacterial transcription antitermination proteins NusG []. ; PDB: 3BBO_W 2HGJ_X 2HGQ_X 2HGU_X 1NPP_B 1M1G_D 1NPR_A 2XHC_A 2KVQ_G 2JVV_A ....
Probab=54.42 E-value=21 Score=23.67 Aligned_cols=22 Identities=14% Similarity=0.329 Sum_probs=17.2
Q ss_pred CCcEEEEeecC--cceEEEEEEEcc
Q 010731 257 INEWIQTKIQG--YEVSGTVEHVGW 279 (502)
Q Consensus 257 VGD~I~i~i~g--~~~~G~Ve~I~l 279 (502)
+||+|.+ ++| .|..|.|.+|.-
T Consensus 1 ~Gd~V~V-~~G~~~G~~G~I~~i~~ 24 (32)
T PF00467_consen 1 VGDTVKV-ISGPFKGKIGKIVEIDR 24 (32)
T ss_dssp TTSEEEE-SSSTTTTEEEEEEEEET
T ss_pred CCCEEEE-eEcCCCCceEEEEEEEC
Confidence 5999998 565 367899998865
No 22
>PF11449 DUF2899: Protein of unknown function (DUF2899); InterPro: IPR021552 This is a bacterial family of uncharacterised proteins.
Probab=51.46 E-value=2.4e+02 Score=28.91 Aligned_cols=44 Identities=20% Similarity=0.326 Sum_probs=31.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHH----HhCCchHHHHHHHHHHHHHH
Q 010731 189 MGFNFAGKAVYTAVWVAAVSLFME----LLGFSTQRWLTAGGLGTVLL 232 (502)
Q Consensus 189 ~~~~~l~~i~~~~v~vi~~~~iL~----~lG~~~~~lla~~Gi~glal 232 (502)
...+.+....++.+|++++..+++ ..|.+...++...|+.+-.+
T Consensus 177 ~~~~a~~hT~~I~~~v~~~~l~~~~~i~~~G~dl~~~l~~~~~~~pli 224 (298)
T PF11449_consen 177 ILQKALQHTLFIFVWVFVAFLALELVIEFIGEDLAALLSGNGILQPLI 224 (298)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCHHHHHHHHhCchHHHHH
Confidence 356777778888888888876654 45888888887666654443
No 23
>COG4956 Integral membrane protein (PIN domain superfamily) [General function prediction only]
Probab=51.35 E-value=2.7e+02 Score=28.88 Aligned_cols=32 Identities=16% Similarity=0.107 Sum_probs=21.8
Q ss_pred hhCChHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010731 59 LRGNPVILRLIPAAALVAFAAWGLVPLVRLGR 90 (502)
Q Consensus 59 ~~~~~~~~~~l~al~i~~~a~~~~~~l~r~i~ 90 (502)
+..|+.+..++.|+..+++..|+.....++.+
T Consensus 36 ~~~n~~v~~ligai~~~li~~~~~~~~~~~~~ 67 (356)
T COG4956 36 FLNNEYVDALIGAIIFFLISFWFGKYVLNWLK 67 (356)
T ss_pred hhccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44566666677777777777777777766664
No 24
>PRK08559 nusG transcription antitermination protein NusG; Validated
Probab=49.48 E-value=52 Score=30.12 Aligned_cols=47 Identities=11% Similarity=0.058 Sum_probs=30.2
Q ss_pred CCccCCcEEEEeecC--cceEEEEEEEccee-EEEEEeCC-CcE--EEEeCccc
Q 010731 253 QPFVINEWIQTKIQG--YEVSGTVEHVGWWS-PTIIRGDD-REA--VHIPNHKF 300 (502)
Q Consensus 253 ~Pf~VGD~I~i~i~g--~~~~G~Ve~I~l~~-TT~irt~d-~~~--v~IPNs~l 300 (502)
.+|++||+|++ ++| .+..|.|++++-.. ...+...+ ... +++|++.+
T Consensus 93 ~~~~~G~~V~I-~~Gpf~g~~g~V~~vd~~k~~v~v~ll~~~~~~pv~v~~~~~ 145 (153)
T PRK08559 93 EGIKEGDIVEL-IAGPFKGEKARVVRVDESKEEVTVELLEAAVPIPVTVRGDQV 145 (153)
T ss_pred cCCCCCCEEEE-eccCCCCceEEEEEEcCCCCEEEEEEECCcceeeEEEeccEE
Confidence 56999999998 554 35789999986322 02232222 323 77887776
No 25
>COG0053 MMT1 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]
Probab=49.10 E-value=3.1e+02 Score=28.06 Aligned_cols=34 Identities=15% Similarity=0.245 Sum_probs=27.0
Q ss_pred ceEEEEEEeecC-CCHHHHHHHHHHHHHHHHcCCC
Q 010731 313 HWRIKTYLAISH-LDVHKVNSIVADMRKVLAKNPQ 346 (502)
Q Consensus 313 ~~~i~~~i~v~y-td~~~v~~i~~~l~~~l~~~~~ 346 (502)
...+.+.+.++. -+.++..++.+++++.+++...
T Consensus 244 ~~~id~~i~v~~~ls~~eah~I~~~ie~~i~~~~~ 278 (304)
T COG0053 244 RIFIDVHIEVDPDLSLEEAHEIADEVEKRIKKEFP 278 (304)
T ss_pred eEEEEEEEEECCCCChHHHHHHHHHHHHHHHHhcC
Confidence 345678888888 4999999999999988877554
No 26
>PRK10929 putative mechanosensitive channel protein; Provisional
Probab=48.58 E-value=2.7e+02 Score=33.91 Aligned_cols=31 Identities=13% Similarity=-0.001 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 010731 66 LRLIPAAALVAFAAWGLVPLVRLGRTIFLNR 96 (502)
Q Consensus 66 ~~~l~al~i~~~a~~~~~~l~r~i~r~~~~r 96 (502)
..++.|++++++++++.+.+.+++.+.+.++
T Consensus 834 ~~ll~AllIliv~~~l~r~l~~lle~~l~~~ 864 (1109)
T PRK10929 834 GSVLIAILVFIITTQLVRNLPALLELALLQH 864 (1109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 4578888888888888888877776655444
No 27
>PF05552 TM_helix: Conserved TM helix; InterPro: IPR008910 This alignment represents a conserved transmembrane helix as well as some flanking sequence. It is often found in association with a Mechanosensitive (MS) channel IPR006685 from INTERPRO.; PDB: 2VV5_F 2OAU_E.
Probab=47.53 E-value=38 Score=25.11 Aligned_cols=36 Identities=14% Similarity=0.331 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccC
Q 010731 145 QRVLNFVRSLSTVLAFAYCLSSLIQQIQKFLTEANDA 181 (502)
Q Consensus 145 ~~l~~~~~~l~~il~~~~~~~~li~~~~~~~~~~~~~ 181 (502)
+++++++..+ ++++++|++.+++..+.+...++.+.
T Consensus 13 ~~lP~iv~Ai-lIl~vG~~va~~v~~~~~~~l~~~~~ 48 (53)
T PF05552_consen 13 AYLPNIVGAI-LILIVGWWVAKFVRKLVRRLLEKRGV 48 (53)
T ss_dssp GGHCHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHCTS
T ss_pred HHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 4555655444 56778899999998887777777653
No 28
>PF09926 DUF2158: Uncharacterized small protein (DUF2158); InterPro: IPR019226 This entry represents a family of predominantly prokaryotic proteins with no known function.
Probab=46.84 E-value=19 Score=27.13 Aligned_cols=23 Identities=35% Similarity=0.271 Sum_probs=18.1
Q ss_pred ccCCcEEEEeecCcceEEEEEEEcc
Q 010731 255 FVINEWIQTKIQGYEVSGTVEHVGW 279 (502)
Q Consensus 255 f~VGD~I~i~i~g~~~~G~Ve~I~l 279 (502)
|++||.|+++ + |+-.-+|.+++=
T Consensus 1 f~~GDvV~LK-S-GGp~MTV~~v~~ 23 (53)
T PF09926_consen 1 FKIGDVVQLK-S-GGPRMTVTEVGP 23 (53)
T ss_pred CCCCCEEEEc-c-CCCCeEEEEccc
Confidence 7899999984 3 467889998753
No 29
>cd04466 S1_YloQ_GTPase S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of three domains: an N-terminal S1 domain, a central GTPase domain, and a C-terminal zinc finger domain. This N-terminal S1 domain binds ssRNA. The central GTPase domain contains nucleotide-binding signature motifs: G1 (walker A), G3 (walker B) and G4 motifs. Experiments show that the bacterial YloQ and YjeQ proteins have low intrinsic GTPase activity. The C-terminal zinc-finger domain has structural similarity to a portion of the DNA-repair protein Rad51. This suggests a possible role for this GTPase as a regulator of translation, perhaps as a translation initiation factor. This family is classified based on the N-terminal S1 domain.
Probab=42.56 E-value=47 Score=25.37 Aligned_cols=31 Identities=10% Similarity=0.258 Sum_probs=20.9
Q ss_pred CCccCCcEEEEeecCcceEEEEEEEcceeEEEE
Q 010731 253 QPFVINEWIQTKIQGYEVSGTVEHVGWWSPTII 285 (502)
Q Consensus 253 ~Pf~VGD~I~i~i~g~~~~G~Ve~I~l~~TT~i 285 (502)
...-+||||.+...+ +..|.|+++--|. +.+
T Consensus 36 ~~~~VGD~V~~~~~~-~~~~~I~~vl~R~-s~l 66 (68)
T cd04466 36 NPPAVGDRVEFEPED-DGEGVIEEILPRK-NLL 66 (68)
T ss_pred CCCCCCcEEEEEECC-CCcEEEEEEeccc-eEE
Confidence 456899999874332 3457888887776 443
No 30
>PF14545 DBB: Dof, BCAP, and BANK (DBB) motif,
Probab=42.53 E-value=53 Score=29.95 Aligned_cols=81 Identities=10% Similarity=0.088 Sum_probs=46.6
Q ss_pred HHHHhcCCccCCcEEEEeecCcceEEEEEEEcceeEEEEEeCCCcEEEEeCcccccceEEEccCCCceEEEEEEeecC-C
Q 010731 247 VMIHATQPFVINEWIQTKIQGYEVSGTVEHVGWWSPTIIRGDDREAVHIPNHKFTVNVVRNLSQKTHWRIKTYLAISH-L 325 (502)
Q Consensus 247 i~I~~~~Pf~VGD~I~i~i~g~~~~G~Ve~I~l~~TT~irt~d~~~v~IPNs~l~~~~I~N~sr~~~~~i~~~i~v~y-t 325 (502)
++|++.+|+.-||++++.+...+..-......|+....+ .+.+|+--+.-+-..|.+-...-.+...-.+.| +
T Consensus 15 vfIiL~~~l~~~~~~eVef~~~n~~~~~~~~~~~N~yt~------~~~aPd~~~~pag~V~v~v~~~g~~~~~~~ikyys 88 (142)
T PF14545_consen 15 VFIILRDPLDEEDTVEVEFESNNKPIRRVPAKWENPYTL------QFKAPDFCLEPAGSVNVRVYCDGVSLGTRQIKYYS 88 (142)
T ss_pred EEEEEeCCCCCCCeEEEEEEeCCCeeEeccceEECCEEE------EEECchhcCCCCceEEEEEEECCEEEEEEeEEEEe
Confidence 457788899999999987655332222344444321111 255676644444444444433333445566777 7
Q ss_pred CHHHHHHH
Q 010731 326 DVHKVNSI 333 (502)
Q Consensus 326 d~~~v~~i 333 (502)
+.+.++++
T Consensus 89 ~~~el~~l 96 (142)
T PF14545_consen 89 RMRELEQL 96 (142)
T ss_pred cHHHHHHH
Confidence 88888876
No 31
>PF13726 Na_H_antiport_2: Na+-H+ antiporter family
Probab=42.34 E-value=51 Score=27.54 Aligned_cols=43 Identities=21% Similarity=0.284 Sum_probs=32.8
Q ss_pred HHHHHHHHHhCCch-HHHHHHHHHHHHHHHHhhhhHHHHHHHHH
Q 010731 205 AAVSLFMELLGFST-QRWLTAGGLGTVLLTLAGREIFTNFLSSV 247 (502)
Q Consensus 205 i~~~~iL~~lG~~~-~~lla~~Gi~glalgfAaq~~l~N~~aGi 247 (502)
+.++.+|..+-+|+ -+++.++-++|++=|+...++++-|.+|+
T Consensus 7 V~vm~~L~LlR~nVvlalliaalvgGl~~Gl~l~~t~~~~~~Gm 50 (88)
T PF13726_consen 7 VLVMIVLSLLRVNVVLALLIAALVGGLVGGLGLGETMSAFIDGM 50 (88)
T ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHHhhcCCCHHHHHHHHHHHh
Confidence 44445566666765 57778888889999999999999888876
No 32
>TIGR00405 L26e_arch ribosomal protein L24p/L26e, archaeal. This protein contains a KOW domain, shared by bacterial NusG and the L24p/L26e family of ribosomal proteins. Although called archaeal NusG in several publications, it is the only close homolog of eukaryotic L26e in archaeal genomes, shares an operon with L11 in many genomes, and has been sequenced from purified ribosomes. It is here designated as a ribosomal protein for these reasons.
Probab=42.31 E-value=61 Score=29.15 Aligned_cols=25 Identities=16% Similarity=0.215 Sum_probs=19.7
Q ss_pred CCccCCcEEEEeecC--cceEEEEEEEc
Q 010731 253 QPFVINEWIQTKIQG--YEVSGTVEHVG 278 (502)
Q Consensus 253 ~Pf~VGD~I~i~i~g--~~~~G~Ve~I~ 278 (502)
..|++||+|++ ++| .|..|.|+++.
T Consensus 85 ~~~~~Gd~V~I-~~GPf~G~~g~v~~~d 111 (145)
T TIGR00405 85 ESIKKGDIVEI-ISGPFKGERAKVIRVD 111 (145)
T ss_pred cccCCCCEEEE-eecCCCCCeEEEEEEc
Confidence 45999999999 564 35788999885
No 33
>PRK12281 rplX 50S ribosomal protein L24; Reviewed
Probab=41.38 E-value=33 Score=27.78 Aligned_cols=27 Identities=19% Similarity=0.086 Sum_probs=20.7
Q ss_pred CccCCcEEEEeecC--cceEEEEEEEccee
Q 010731 254 PFVINEWIQTKIQG--YEVSGTVEHVGWWS 281 (502)
Q Consensus 254 Pf~VGD~I~i~i~g--~~~~G~Ve~I~l~~ 281 (502)
+++.||.|.+ +.| .|..|.|.+|.-..
T Consensus 6 ~I~kGD~V~V-i~G~dKGK~G~V~~V~~~~ 34 (76)
T PRK12281 6 KVKKGDMVKV-IAGDDKGKTGKVLAVLPKK 34 (76)
T ss_pred cccCCCEEEE-eEcCCCCcEEEEEEEEcCC
Confidence 7999999998 665 25678888886543
No 34
>PRK06531 yajC preprotein translocase subunit YajC; Validated
Probab=40.76 E-value=71 Score=27.96 Aligned_cols=38 Identities=18% Similarity=0.127 Sum_probs=25.7
Q ss_pred ccCCcEEEEeecCcceEEEEEEEcce-eEEEEEeCCCcEEEEe
Q 010731 255 FVINEWIQTKIQGYEVSGTVEHVGWW-SPTIIRGDDREAVHIP 296 (502)
Q Consensus 255 f~VGD~I~i~i~g~~~~G~Ve~I~l~-~TT~irt~d~~~v~IP 296 (502)
.++||.|.. + ||..|+|.+|+-- .+..+.. +|..+.+=
T Consensus 37 Lk~GD~VvT-~--GGi~G~V~~I~~~~~~v~le~-~gv~i~v~ 75 (113)
T PRK06531 37 IQKGDEVVT-I--GGLYGTVDEVDTEAKTIVLDV-DGVYLTFE 75 (113)
T ss_pred cCCCCEEEE-C--CCcEEEEEEEecCCCEEEEEE-CCEEEEEE
Confidence 689999997 2 5699999999752 1255555 55544443
No 35
>KOG4330 consensus Uncharacterized conserved protein [Function unknown]
Probab=40.51 E-value=39 Score=31.77 Aligned_cols=32 Identities=25% Similarity=0.183 Sum_probs=23.5
Q ss_pred HhhccCcchhhhhhhhchhhHHHHhhhhhhcC
Q 010731 471 IRRLNQPQNLILRHIHRLDWYQLLTTKRARQY 502 (502)
Q Consensus 471 d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 502 (502)
-+.+=|.+=+-.|.+-|..+|.+||||-|.||
T Consensus 151 VqmICErllKerE~klReeyE~vLttKLaEQy 182 (206)
T KOG4330|consen 151 VQMICERLLKEREIKLREEYEMVLTTKLAEQY 182 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555555555556667789999999999997
No 36
>PF00575 S1: S1 RNA binding domain; InterPro: IPR003029 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. The S1 domain was originally identified in ribosomal protein S1 but is found in a large number of RNA-associated proteins. The structure of the S1 RNA-binding domain from the Escherichia coli polynucleotide phosphorylase has been determined using NMR methods and consists of a five-stranded antiparallel beta barrel. Conserved residues on one face of the barrel and adjacent loops form the putative RNA-binding site []. The structure of the S1 domain is very similar to that of cold shock proteins. This suggests that they may both be derived from an ancient nucleic acid-binding protein []. More information about these proteins can be found at Protein of the Month: RNA Exosomes []. This entry does not include translation initiation factor IF-1 S1 domains.; GO: 0003723 RNA binding; PDB: 3L7Z_F 2JE6_I 2JEA_I 2JEB_I 1E3P_A 2Y0S_E 1WI5_A 2BH8_A 2CQO_A 2EQS_A ....
Probab=40.51 E-value=79 Score=24.38 Aligned_cols=40 Identities=18% Similarity=0.224 Sum_probs=31.9
Q ss_pred eEEEEEEEcceeEEEEEeCCCcEEEEeCcccccceEEEccC
Q 010731 270 VSGTVEHVGWWSPTIIRGDDREAVHIPNHKFTVNVVRNLSQ 310 (502)
Q Consensus 270 ~~G~Ve~I~l~~TT~irt~d~~~v~IPNs~l~~~~I~N~sr 310 (502)
+.|+|.++.=.. ..+.-.++-.-.+|.+.+......+.+.
T Consensus 8 v~g~V~~v~~~g-~~V~l~~~~~g~ip~~~l~~~~~~~~~~ 47 (74)
T PF00575_consen 8 VEGKVTSVEDFG-VFVDLGNGIEGFIPISELSDDRIDDPSE 47 (74)
T ss_dssp EEEEEEEEETTE-EEEEESTSSEEEEEGGGSSSSEESSSHG
T ss_pred EEEEEEEEECCE-EEEEECCcEEEEEEeehhcCcccccccc
Confidence 348999999877 7888778999999999999875554444
No 37
>COG4873 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=40.41 E-value=34 Score=26.88 Aligned_cols=25 Identities=28% Similarity=0.247 Sum_probs=20.6
Q ss_pred CccCCcEEEEeecCcceEEEEEEEccee
Q 010731 254 PFVINEWIQTKIQGYEVSGTVEHVGWWS 281 (502)
Q Consensus 254 Pf~VGD~I~i~i~g~~~~G~Ve~I~l~~ 281 (502)
--.|||.|+++ | |..|+||+++=-|
T Consensus 23 ~a~vgniief~-d--gl~g~vek~nens 47 (81)
T COG4873 23 IAKVGNIIEFK-D--GLTGVVEKVNENS 47 (81)
T ss_pred eeeccceEEEc-c--cceeeeeeecCCc
Confidence 35799999983 4 4999999999877
No 38
>PF02933 CDC48_2: Cell division protein 48 (CDC48), domain 2; InterPro: IPR004201 This domain has a double psi-beta barrel fold and includes VCP-like ATPase and N-ethylmaleimide sensitive fusion protein N-terminal domains. Both the VAT and NSF N-terminal functional domains consist of two structural domains of which this is at the C terminus. The VAT-N domain found in AAA ATPases (IPR003959 from INTERPRO) is a substrate 185-residue recognition domain [].; GO: 0005524 ATP binding; PDB: 1QDN_B 1QCS_A 1CR5_C 3QQ8_A 3HU2_A 3HU1_E 3HU3_A 3QWZ_A 3TIW_B 3QQ7_A ....
Probab=38.82 E-value=74 Score=24.39 Aligned_cols=32 Identities=13% Similarity=-0.035 Sum_probs=21.3
Q ss_pred HhcCCccCCcEEEEeecCcceEEEEEEEccee
Q 010731 250 HATQPFVINEWIQTKIQGYEVSGTVEHVGWWS 281 (502)
Q Consensus 250 ~~~~Pf~VGD~I~i~i~g~~~~G~Ve~I~l~~ 281 (502)
+.++|+..||.|.+.+.|+...-.|.++.-.-
T Consensus 14 l~~~pv~~Gd~i~~~~~~~~~~~~V~~~~P~~ 45 (64)
T PF02933_consen 14 LEGRPVTKGDTIVFPFFGQALPFKVVSTEPSG 45 (64)
T ss_dssp HTTEEEETT-EEEEEETTEEEEEEEEEECSSS
T ss_pred HcCCCccCCCEEEEEeCCcEEEEEEEEEEcCC
Confidence 45689999999998666555555666555443
No 39
>PF06442 DHFR_2: R67 dihydrofolate reductase; InterPro: IPR009159 Dihydrofolate reductase (DHFR) (1.5.1.3 from EC) catalyses the NADPH-dependent reduction of dihydrofolate to tetrahydrofolate, an essential step in de novo synthesis both of glycine and of purines and deoxythymidine phosphate (the precursors of DNA synthesis) [], and important also in the conversion of deoxyuridine monophosphate to deoxythymidine monophosphate. Although DHFR is found ubiquitously in prokaryotes and eukaryotes, and is found in all dividing cells, maintaining levels of fully reduced folate coenzymes, the catabolic steps are still not well understood []. Bacterial species possesses distinct DHFR enzymes (based on their pattern of binding diaminoheterocyclic molecules), but mammalian DHFRs are highly similar []. The active site is situated in the N-terminal half of the sequence, which includes a conserved Pro-Trp dipeptide; the tryptophan has been shown [] to be involved in the binding of substrate by the enzyme. Its central role in DNA precursor synthesis, coupled with its inhibition by antagonists such as trimethoprim and methotrexate, which are used as anti-bacterial or anti-cancer agents, has made DHFR a target of anticancer chemotherapy. However, resistance has developed against some drugs, as a result of changes in DHFR itself []. This entry represents a plasmid-encoded DHFR which shows a high level of resistance to the antibiotic trimethoprim. It is a homotetramer with an unusual pore, which contains the active site, passing through the middle of the molecule []. Its structure is unrelated to that of chromosomal DHFRs.; GO: 0004146 dihydrofolate reductase activity, 0042493 response to drug, 0055114 oxidation-reduction process; PDB: 1VIF_A 3SFM_A 2P4T_A 2GQV_A 2RK2_A 2RH2_A 2RK1_A 1VIE_A.
Probab=38.05 E-value=38 Score=26.44 Aligned_cols=42 Identities=21% Similarity=0.476 Sum_probs=17.2
Q ss_pred HHHHHHH-HHHHhcCCccCCcEEEEeecCcceEEEEEEEcceeEEEE
Q 010731 240 FTNFLSS-VMIHATQPFVINEWIQTKIQGYEVSGTVEHVGWWSPTII 285 (502)
Q Consensus 240 l~N~~aG-i~I~~~~Pf~VGD~I~i~i~g~~~~G~Ve~I~l~~TT~i 285 (502)
+.|-.+| +.+-....|..||+|+= ..|..-.|.| +||.+ |.+
T Consensus 8 v~~~vag~fa~ps~atf~~gdrvrk-ksgaawqg~v--vgwy~-t~l 50 (78)
T PF06442_consen 8 VSNPVAGQFAFPSNATFGMGDRVRK-KSGAAWQGQV--VGWYC-TKL 50 (78)
T ss_dssp -------------S-SS-TT-EEEE-SSSS--EEEE--EEEE---SS
T ss_pred cccccccceecccccccccchhhhh-cccccccceE--eEEEe-ccc
Confidence 3445555 34456679999999994 5655667877 57887 544
No 40
>COG2139 RPL21A Ribosomal protein L21E [Translation, ribosomal structure and biogenesis]
Probab=36.92 E-value=60 Score=27.50 Aligned_cols=38 Identities=18% Similarity=0.160 Sum_probs=28.0
Q ss_pred CCccCCcEEEEeecCc-----------ceEEEEEEEcceeEEEEEeCCCc
Q 010731 253 QPFVINEWIQTKIQGY-----------EVSGTVEHVGWWSPTIIRGDDRE 291 (502)
Q Consensus 253 ~Pf~VGD~I~i~i~g~-----------~~~G~Ve~I~l~~TT~irt~d~~ 291 (502)
+-|++||.|.|.||.. |-+|+|+...=++ -.+...||.
T Consensus 31 ~ey~~Gd~V~I~IdpSv~kGmPh~rf~G~TG~Vvg~~g~a-y~V~v~~G~ 79 (98)
T COG2139 31 QEYKVGDKVHIDIDPSVHKGMPHPRFQGKTGTVVGVRGRA-YKVEVYDGN 79 (98)
T ss_pred hhccCCCEEEEEeCcccccCCCCccccCcceEEEeccCCE-EEEEEecCC
Confidence 4699999999877642 4568898888777 666655554
No 41
>CHL00141 rpl24 ribosomal protein L24; Validated
Probab=36.24 E-value=44 Score=27.55 Aligned_cols=27 Identities=22% Similarity=0.136 Sum_probs=20.6
Q ss_pred CccCCcEEEEeecC--cceEEEEEEEccee
Q 010731 254 PFVINEWIQTKIQG--YEVSGTVEHVGWWS 281 (502)
Q Consensus 254 Pf~VGD~I~i~i~g--~~~~G~Ve~I~l~~ 281 (502)
+++.||.|++ +.| .|..|.|.+|.-..
T Consensus 8 ~I~~GD~V~V-i~G~dKGK~G~V~~V~~~~ 36 (83)
T CHL00141 8 HVKIGDTVKI-ISGSDKGKIGEVLKIIKKS 36 (83)
T ss_pred cccCCCEEEE-eEcCCCCcEEEEEEEEcCC
Confidence 7899999998 665 35678888886543
No 42
>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].
Probab=35.69 E-value=1.6e+02 Score=27.53 Aligned_cols=38 Identities=8% Similarity=-0.058 Sum_probs=18.3
Q ss_pred HHHHhCCchH-HHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcC
Q 010731 210 FMELLGFSTQ-RWLTAGGLGTVLLTLAGREIFTNFLSSVMIHATQ 253 (502)
Q Consensus 210 iL~~lG~~~~-~lla~~Gi~glalgfAaq~~l~N~~aGi~I~~~~ 253 (502)
++..++.+.+ .+.+.+|++.+|+|.+. +.+|+.....+
T Consensus 25 ~Lv~~~~~l~~~~s~~lg~~~lAlg~vL------~~~g~~~~~~~ 63 (191)
T PF04156_consen 25 ALVLFISGLGALISFILGIALLALGVVL------LSLGLLCLLSK 63 (191)
T ss_pred HHHHHHhhhHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHc
Confidence 3444444433 23345555566666443 44555544443
No 43
>COG3264 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]
Probab=35.27 E-value=8.1e+02 Score=28.86 Aligned_cols=23 Identities=13% Similarity=0.176 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhC
Q 010731 193 FAGKAVYTAVWVAAVSLFMELLG 215 (502)
Q Consensus 193 ~l~~i~~~~v~vi~~~~iL~~lG 215 (502)
...++.+.+++++++..++..+|
T Consensus 510 ~~~~~~rl~~~~~~i~l~l~~wg 532 (835)
T COG3264 510 QLLRLIRLLLLLIAIPLVLYVWG 532 (835)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHh
Confidence 34456667777777777777777
No 44
>PF02699 YajC: Preprotein translocase subunit; InterPro: IPR003849 Secretion across the inner membrane in some Gram-negative bacteria occurs via the preprotein translocase pathway. Proteins are produced in the cytoplasm as precursors, and require a chaperone subunit to direct them to the translocase component []. From there, the mature proteins are either targeted to the outer membrane, or remain as periplasmic proteins []. The translocase protein subunits are encoded on the bacterial chromosome. The translocase itself comprises 7 proteins, including a chaperone (SecB), ATPase (SecA), an integral membrane complex (SecY, SecE and SecG), and two additional membrane proteins that promote the release of the mature peptide into the periplasm (SecD and SecF) []. Other cytoplasmic/periplasmic proteins play a part in preprotein translocase activity, namely YidC and YajC []. The latter is bound in a complex to SecD and SecF, and plays a part in stabilising and regulating secretion through the SecYEG integral membrane component via SecA []. Homologues of the YajC gene have been found in a range of pathogenic and commensal microbes. Brucella abortis YajC- and SecD-like proteins were shown to stimulate a Th1 cell-mediated immune response in mice, and conferred protection when challenged with B.abortis []. Therefore, these proteins may have an antigenic role as well as a secretory one in virulent bacteria []. A number of previously uncharacterised "hypothetical" proteins also show similarity to E.coli YajC, suggesting that this family is wider than first thought []. More recently, the precise interactions between the E.coli SecYEG complex, SecD, SecF, YajC and YidC have been studied []. Rather than acting individually, the four proteins form a heterotetrameric complex and associate with the SecYEG heterotrimeric complex []. The SecF and YajC subunits link the complex to the integral membrane translocase. ; PDB: 2RDD_B.
Probab=34.71 E-value=13 Score=30.46 Aligned_cols=39 Identities=13% Similarity=0.090 Sum_probs=0.4
Q ss_pred CCccCCcEEEEeecCcceEEEEEEEcceeEEEEEeCCCcEEEE
Q 010731 253 QPFVINEWIQTKIQGYEVSGTVEHVGWWSPTIIRGDDREAVHI 295 (502)
Q Consensus 253 ~Pf~VGD~I~i~i~g~~~~G~Ve~I~l~~TT~irt~d~~~v~I 295 (502)
+..++||+|.. . +|..|+|.+++=-+ ..++..+|..+.+
T Consensus 35 ~~Lk~Gd~VvT-~--gGi~G~V~~i~~~~-v~lei~~g~~i~v 73 (82)
T PF02699_consen 35 ASLKPGDEVVT-I--GGIYGTVVEIDDDT-VVLEIAPGVEITV 73 (82)
T ss_dssp G------------------------------------------
T ss_pred HcCCCCCEEEE-C--CcEEEEEEEEeCCE-EEEEECCCeEEEE
Confidence 34789999997 2 46999999998776 7888877755544
No 45
>smart00743 Agenet Tudor-like domain present in plant sequences. Domain in plant sequences with possible chromatin-associated functions.
Probab=34.58 E-value=1.4e+02 Score=22.29 Aligned_cols=26 Identities=12% Similarity=-0.045 Sum_probs=19.8
Q ss_pred CccCCcEEEEee--cCcceEEEEEEEcc
Q 010731 254 PFVINEWIQTKI--QGYEVSGTVEHVGW 279 (502)
Q Consensus 254 Pf~VGD~I~i~i--~g~~~~G~Ve~I~l 279 (502)
-|++||.|++.. +|+-..|+|.++.=
T Consensus 2 ~~~~G~~Ve~~~~~~~~W~~a~V~~~~~ 29 (61)
T smart00743 2 DFKKGDRVEVFSKEEDSWWEAVVTKVLG 29 (61)
T ss_pred CcCCCCEEEEEECCCCEEEEEEEEEECC
Confidence 489999999965 55556688887754
No 46
>PF02934 GatB_N: GatB/GatE catalytic domain; InterPro: IPR006075 Glutamyl-tRNA(Gln) amidotransferase subunit B (6.3.5 from EC) [] is a microbial enzyme that furnishes a means for formation of correctly charged Gln-tRNA(Gln) through the transamidation of misacylated Glu-tRNA(Gln) in organisms which lack glutaminyl-tRNA synthetase. The reaction takes place in the presence of glutamine and ATP through an activated gamma-phospho-Glu-tRNA(Gln). The enzyme is composed of three subunits: A (an amidase), B and C. It also exists in eukaryotes as a protein targeted to the mitochondria. ; GO: 0016874 ligase activity; PDB: 3H0M_H 3H0R_K 3H0L_K 3AL0_B 3IP4_B 2DF4_B 2G5I_B 2F2A_B 2G5H_B 2DQN_B ....
Probab=34.24 E-value=2.4e+02 Score=28.82 Aligned_cols=143 Identities=11% Similarity=0.069 Sum_probs=81.5
Q ss_pred HHHHHH-hcCCccCCcEEEEeecCcceEEEEEEEcceeEEEEEeCCCcEEEEeCcccccceEEEccCCCceEEEEEEeec
Q 010731 245 SSVMIH-ATQPFVINEWIQTKIQGYEVSGTVEHVGWWSPTIIRGDDREAVHIPNHKFTVNVVRNLSQKTHWRIKTYLAIS 323 (502)
Q Consensus 245 aGi~I~-~~~Pf~VGD~I~i~i~g~~~~G~Ve~I~l~~TT~irt~d~~~v~IPNs~l~~~~I~N~sr~~~~~i~~~i~v~ 323 (502)
.|.+|. ++.|+-.|=+|.+ +...|.-..|++.. .++.-+.|+.+.-.+ =.+.....+.|.+.--+.+.-.=+
T Consensus 85 kgYQITQ~~~Pi~~~G~i~i----~~~~~~~k~I~I~~-ihlEEDagK~~h~~~--~~~~s~vD~NRaG~PLiEIVTePd 157 (289)
T PF02934_consen 85 KGYQITQYDNPIAENGYIEI----EFEDGREKRIRIER-IHLEEDAGKSIHDGG--GEDYSLVDYNRAGVPLIEIVTEPD 157 (289)
T ss_dssp TSEEEEESSS-SEEEEEEEE----TECTSSTEEEEEEE-EEEEE---EEEEETT---TTEEEEETTSTT-EEEEEEE-TT
T ss_pred cCccccCCccceecCCEEEE----EecCCceEEEEEEE-EEehhhhhhhccccc--cceeeEEcccCCCccceEEeeCCC
Confidence 445443 5678888888887 22234457889988 999999999998865 112346679998876666666666
Q ss_pred CCCHHHHHHHHHHHHHHHHcCCCcccccc--ceEE----EEEeecCCCCeeEEEEEEEEecCChhhHHHHHHHHHHHHHH
Q 010731 324 HLDVHKVNSIVADMRKVLAKNPQVEQQRL--HRRV----FLENINPESQSLNILVSCFVKTSRFEEYLCVKEAILLDLLH 397 (502)
Q Consensus 324 ytd~~~v~~i~~~l~~~l~~~~~i~~~~~--~p~v----~v~~~~~~~~~v~i~v~~~v~~~~~~~~~~vr~~l~~~i~~ 397 (502)
..+.+++...+++++.+++...-.+.... .-+| .+...+... ..-++-+++- ..+..++..+..++.+
T Consensus 158 ~~s~~EA~~~~~~L~~il~~lgvs~~~me~GslR~DvNVSv~~~g~~~----~g~rvEIKNl--nS~~~i~~AI~~Ei~R 231 (289)
T PF02934_consen 158 IRSPEEAAAFLKKLRRILRYLGVSDGNMEEGSLRCDVNVSVRPKGEEK----FGTRVEIKNL--NSFRFIEKAIEYEIER 231 (289)
T ss_dssp B-SHHHHHHHHHHHHHHHHHHTSB--SGGGTSEEEEEEEEECETTSSS----TS-EEEEEEE---SHHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHHHhcCcccCccccCcEEeeceeeecCCCCCC----CcceEEEecc--cCHHHHHHHHHHHHHH
Confidence 67999999999999998875443332220 1122 222222111 2223444443 3466677777766666
Q ss_pred HHH
Q 010731 398 VIS 400 (502)
Q Consensus 398 ~~~ 400 (502)
..+
T Consensus 232 Q~~ 234 (289)
T PF02934_consen 232 QIE 234 (289)
T ss_dssp HHH
T ss_pred HHH
Confidence 543
No 47
>PF12794 MscS_TM: Mechanosensitive ion channel inner membrane domain 1
Probab=33.48 E-value=5.7e+02 Score=26.56 Aligned_cols=45 Identities=13% Similarity=0.142 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCC--chHHHHHHHHHHHHHHHHh
Q 010731 191 FNFAGKAVYTAVWVAAVSLFMELLGF--STQRWLTAGGLGTVLLTLA 235 (502)
Q Consensus 191 ~~~l~~i~~~~v~vi~~~~iL~~lG~--~~~~lla~~Gi~glalgfA 235 (502)
.+.+++.++.+++++..+++...+.. +....-.++|-++..++.+
T Consensus 122 ~~~~r~~l~~~~~~~~pl~~~~~~~~~~~~~~~~d~LGrl~~ii~~~ 168 (340)
T PF12794_consen 122 VQRLRRQLRWLIWVLVPLLFISIFAENLPDGLARDVLGRLAFIILLL 168 (340)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccCchhhhhhhHHHHHHHHHHH
Confidence 55667777777777777666665533 3333444555555444433
No 48
>COG1033 Predicted exporters of the RND superfamily [General function prediction only]
Probab=32.80 E-value=8.4e+02 Score=28.34 Aligned_cols=26 Identities=4% Similarity=-0.115 Sum_probs=13.3
Q ss_pred HHHhCCchHHHHHHHHHHHHHHHHhh
Q 010731 211 MELLGFSTQRWLTAGGLGTVLLTLAG 236 (502)
Q Consensus 211 L~~lG~~~~~lla~~Gi~glalgfAa 236 (502)
|...+++...-++-+-..|++++++.
T Consensus 313 l~~s~i~~i~~~Gi~~siGi~la~l~ 338 (727)
T COG1033 313 LLTSSIPAIKEFGILLSIGIILAFLS 338 (727)
T ss_pred HHHcccHHHHHHHHHHHHHHHHHHHH
Confidence 33446665555555555555555443
No 49
>COG1377 FlhB Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=31.99 E-value=6.4e+02 Score=26.69 Aligned_cols=26 Identities=8% Similarity=0.232 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010731 146 RVLNFVRSLSTVLAFAYCLSSLIQQI 171 (502)
Q Consensus 146 ~l~~~~~~l~~il~~~~~~~~li~~~ 171 (502)
.+..++.+++-+.+++++.+.++..-
T Consensus 142 ~~vEllKsllKi~~v~~v~~~~l~~~ 167 (363)
T COG1377 142 TLVELLKSLLKIVLVGLVAYFVLKNH 167 (363)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 45556666666666666655555443
No 50
>PF01157 Ribosomal_L21e: Ribosomal protein L21e; InterPro: IPR001147 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. L21E family contains proteins from a number of eukaryotic and archaebacterial organisms which include; mammalian L2, Entamoeba histolytica L21, Caenorhabditis elegans L21 (C14B9.7), Saccharomyces cerevisiae (Baker's yeast) L21E (URP1) and Haloarcula marismortui HL31.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3IZR_U 1S1I_Q 3O58_T 3IZS_U 3O5H_T 1Q82_R 1KQS_P 3CCJ_Q 3CCQ_Q 1VQ5_Q ....
Probab=31.87 E-value=55 Score=27.98 Aligned_cols=28 Identities=21% Similarity=0.207 Sum_probs=14.3
Q ss_pred CCccCCcEEEEeecCc-----------ceEEEEEEEcce
Q 010731 253 QPFVINEWIQTKIQGY-----------EVSGTVEHVGWW 280 (502)
Q Consensus 253 ~Pf~VGD~I~i~i~g~-----------~~~G~Ve~I~l~ 280 (502)
+.|++||.|.|.+|+. |-+|+|..++=.
T Consensus 31 ~~yk~GD~V~I~id~sv~kGmPh~~yHGkTG~V~~v~~~ 69 (99)
T PF01157_consen 31 QEYKVGDKVDIKIDPSVHKGMPHKRYHGKTGRVFNVTKG 69 (99)
T ss_dssp ----TT-EEEE---TTSSSSS--GGGTTEEEEEEEE-SS
T ss_pred HHccCCCEEEEEecCccccCCCcceECCCceeEEEeCCC
Confidence 6799999999976653 457888877654
No 51
>PRK00004 rplX 50S ribosomal protein L24; Reviewed
Probab=31.01 E-value=57 Score=28.06 Aligned_cols=27 Identities=19% Similarity=0.021 Sum_probs=20.8
Q ss_pred CccCCcEEEEeecC--cceEEEEEEEccee
Q 010731 254 PFVINEWIQTKIQG--YEVSGTVEHVGWWS 281 (502)
Q Consensus 254 Pf~VGD~I~i~i~g--~~~~G~Ve~I~l~~ 281 (502)
+++.||.|.+ +.| .|..|.|.+|.-..
T Consensus 4 ~i~kGD~V~V-i~G~dKGk~G~V~~V~~~~ 32 (105)
T PRK00004 4 KIKKGDTVIV-IAGKDKGKRGKVLKVLPKK 32 (105)
T ss_pred cccCCCEEEE-eEcCCCCcEEEEEEEEcCC
Confidence 7999999998 665 35678898886543
No 52
>cd04461 S1_Rrp5_repeat_hs8_sc7 S1_Rrp5_repeat_hs8_sc7: Rrp5 Homo sapiens S1 repeat 8 (hs8) and Saccharomyces cerevisiae S1 repeat 7 (sc7)-like domains. Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in S. cerevisiae Rrp5 and 14 S1 repeats in H. sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 8 and S. cerevisiae S1 repeat 7. Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=30.77 E-value=1.2e+02 Score=24.10 Aligned_cols=43 Identities=9% Similarity=0.059 Sum_probs=32.8
Q ss_pred ccCCcEEEEeecCcceEEEEEEEcceeEEEEEeCCCcEEEEeCcccccceEEE
Q 010731 255 FVINEWIQTKIQGYEVSGTVEHVGWWSPTIIRGDDREAVHIPNHKFTVNVVRN 307 (502)
Q Consensus 255 f~VGD~I~i~i~g~~~~G~Ve~I~l~~TT~irt~d~~~v~IPNs~l~~~~I~N 307 (502)
+++||.+. |+|.++.=.- ..+...++..-.+|.+.+....+.|
T Consensus 12 ~~~G~i~~---------g~V~~v~~~G-~fv~l~~~~~g~v~~~el~~~~~~~ 54 (83)
T cd04461 12 LKPGMVVH---------GYVRNITPYG-VFVEFLGGLTGLAPKSYISDEFVTD 54 (83)
T ss_pred CCCCCEEE---------EEEEEEeece-EEEEcCCCCEEEEEHHHCCcccccC
Confidence 67787654 7888887776 7777778888899999998766554
No 53
>PRK10694 acyl-CoA esterase; Provisional
Probab=30.37 E-value=54 Score=29.30 Aligned_cols=31 Identities=13% Similarity=0.099 Sum_probs=24.3
Q ss_pred HHHhcCCccCCcEEEEeecCcceEEEEEEEcceeEEEEE
Q 010731 248 MIHATQPFVINEWIQTKIQGYEVSGTVEHVGWWSPTIIR 286 (502)
Q Consensus 248 ~I~~~~Pf~VGD~I~i~i~g~~~~G~Ve~I~l~~TT~ir 286 (502)
-+.|-+|.++||.|++ .++|+.+|=.| ..++
T Consensus 61 ~i~F~~Pv~~Gd~l~~-------~a~V~~~g~sS-~~v~ 91 (133)
T PRK10694 61 GMTFLRPVAVGDVVCC-------YARCVKTGTTS-ISIN 91 (133)
T ss_pred ceEECCCcccCcEEEE-------EEEEEEccCce-EEEE
Confidence 3578899999999985 57888888777 5543
No 54
>cd05705 S1_Rrp5_repeat_hs14 S1_Rrp5_repeat_hs14: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 14 (hs14). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=28.91 E-value=1.9e+02 Score=22.74 Aligned_cols=44 Identities=14% Similarity=0.056 Sum_probs=31.8
Q ss_pred ccCCcEEEEeecCcceEEEEEEEcceeEEEEEeCCCcEEEEeCcccccceEEEc
Q 010731 255 FVINEWIQTKIQGYEVSGTVEHVGWWSPTIIRGDDREAVHIPNHKFTVNVVRNL 308 (502)
Q Consensus 255 f~VGD~I~i~i~g~~~~G~Ve~I~l~~TT~irt~d~~~v~IPNs~l~~~~I~N~ 308 (502)
+++||.|. |+|.+|.=.. ..+....+-.-.||-+.++...+.|.
T Consensus 1 ~k~G~~V~---------g~V~~i~~~G-~fV~l~~~v~G~v~~~~ls~~~~~~~ 44 (74)
T cd05705 1 IKEGQLLR---------GYVSSVTKQG-VFFRLSSSIVGRVLFQNVTKYFVSDP 44 (74)
T ss_pred CCCCCEEE---------EEEEEEeCCc-EEEEeCCCCEEEEEHHHccCccccCh
Confidence 35666554 7888887655 66666677888889888888776664
No 55
>PRK01191 rpl24p 50S ribosomal protein L24P; Validated
Probab=28.90 E-value=59 Score=28.76 Aligned_cols=26 Identities=19% Similarity=0.280 Sum_probs=19.9
Q ss_pred CccCCcEEEEeecC--cceEEEEEEEcce
Q 010731 254 PFVINEWIQTKIQG--YEVSGTVEHVGWW 280 (502)
Q Consensus 254 Pf~VGD~I~i~i~g--~~~~G~Ve~I~l~ 280 (502)
+++.||.|+| +.| .|..|.|.+|.-.
T Consensus 45 ~IkkGD~V~V-isG~~KGk~GkV~~V~~~ 72 (120)
T PRK01191 45 PVRKGDTVKV-MRGDFKGEEGKVVEVDLK 72 (120)
T ss_pred eEeCCCEEEE-eecCCCCceEEEEEEEcC
Confidence 7999999998 665 2467888887543
No 56
>COG4858 Uncharacterized membrane-bound protein conserved in bacteria [Function unknown]
Probab=28.80 E-value=5.3e+02 Score=24.77 Aligned_cols=69 Identities=17% Similarity=0.322 Sum_probs=29.2
Q ss_pred hhHHHHHHHhhC-ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccC--CCcccchhHHHHHHhHHHHHHHHHHH
Q 010731 50 AVLTRSYDTLRG-NPVILRLIPAAALVAFAAWGLVPLVRLGRTIFLNRTD--GSWKRSRTHYILTSYLQPLLLWTGVT 124 (502)
Q Consensus 50 ~~l~~~~~~~~~-~~~~~~~l~al~i~~~a~~~~~~l~r~i~r~~~~r~~--~~~~~~~~~~ll~~~~~Pl~l~l~~~ 124 (502)
++|.-+.-+++. |.-...++..+...+.+.+.+....+...|....++. ..|+ .+-.....+.+|+.++
T Consensus 108 ~aLlsgitaff~~nA~~~GlItlll~a~vgGfamy~my~y~yr~~ad~sqr~~~~K------~~lv~~~sm~lWi~v~ 179 (226)
T COG4858 108 MALLSGITAFFQKNAQVYGLITLLLTAVVGGFAMYIMYYYAYRMRADNSQRPGTWK------YLLVAVLSMLLWIAVM 179 (226)
T ss_pred HHHHHHHHHHHhcCCcchhHHHHHHHHHhhhHHHHHHHHHHHHhhcccccCCchHH------HHHHHHHHHHHHHHHH
Confidence 556666655554 4333333333333333333333333334333332222 2332 2333344556666655
No 57
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=28.45 E-value=94 Score=37.24 Aligned_cols=47 Identities=21% Similarity=0.242 Sum_probs=35.3
Q ss_pred CCccCCcEEEEeecC------cceEEEEEEEcceeEEEEEeCCCcEEEEeCccc
Q 010731 253 QPFVINEWIQTKIQG------YEVSGTVEHVGWWSPTIIRGDDREAVHIPNHKF 300 (502)
Q Consensus 253 ~Pf~VGD~I~i~i~g------~~~~G~Ve~I~l~~TT~irt~d~~~v~IPNs~l 300 (502)
+.|++||+|.+.-++ +|..|+|++|.=.. ..++..||+.+.+|...+
T Consensus 599 r~~~vGDrVm~~rNd~~lgV~NGd~GtV~~I~~~~-i~V~~d~gr~V~~~~~~~ 651 (988)
T PRK13889 599 RSFASGDRVMFLQNERGLGVKNGTLGTIEQVSAQS-MSVRLDDGRSVAFDLKDY 651 (988)
T ss_pred ccccCCCEEEEeecCCcCCEeCCCeEEEEEecCCe-EEEEECCCeEEEecHHHc
Confidence 579999999973111 24679999998776 778888888888876544
No 58
>PRK04306 50S ribosomal protein L21e; Reviewed
Probab=28.31 E-value=1e+02 Score=26.28 Aligned_cols=29 Identities=21% Similarity=0.101 Sum_probs=21.0
Q ss_pred CCccCCcEEEEeecCc-----------ceEEEEEEEccee
Q 010731 253 QPFVINEWIQTKIQGY-----------EVSGTVEHVGWWS 281 (502)
Q Consensus 253 ~Pf~VGD~I~i~i~g~-----------~~~G~Ve~I~l~~ 281 (502)
+.|++||.|.|++|+. |-+|+|..++=++
T Consensus 33 ~~y~~Gd~V~I~~d~sv~kGmPh~~yhGkTG~V~~v~~~A 72 (98)
T PRK04306 33 QEFEEGDKVHIVIDPSVHKGMPHPRFHGKTGTVVGKRGRA 72 (98)
T ss_pred HhccCCCEEEEEecCceecCCccccccCCCEEEEeecCeE
Confidence 4599999999977652 2257777777666
No 59
>PF09378 HAS-barrel: HAS barrel domain; InterPro: IPR018538 The HAS barrel is named after HerA-ATP Synthase. In ATP synthases, this domain is implicated in the assembly of the catalytic toroid and docking of accessory subunits, such as the subunit of the ATP synthase complex. Similar roles in docking of the functional partner, the NurA nuclease, and assembly of the HerA toroid complex appear likely for the HAS-barrel of the HerA family []. ; PDB: 3OAA_I.
Probab=28.29 E-value=70 Score=25.88 Aligned_cols=27 Identities=19% Similarity=0.303 Sum_probs=19.1
Q ss_pred CccCCcEEEEeec-CcceEEEEEEEcce
Q 010731 254 PFVINEWIQTKIQ-GYEVSGTVEHVGWW 280 (502)
Q Consensus 254 Pf~VGD~I~i~i~-g~~~~G~Ve~I~l~ 280 (502)
+.++||+|.++.+ +..+-|.|++|...
T Consensus 22 ~v~~GeyV~i~~~~~~~vlG~V~~i~~~ 49 (91)
T PF09378_consen 22 DVRVGEYVVIEYDDGEKVLGMVTSISRG 49 (91)
T ss_dssp T-BTTEEEEES----TTEEEEEEEEES-
T ss_pred CCCcCeEEEEEEechhhhhhhhheeEEc
Confidence 8999999998544 55688999988773
No 60
>smart00333 TUDOR Tudor domain. Domain of unknown function present in several RNA-binding proteins. 10 copies in the Drosophila Tudor protein. Initial proposal that the survival motor neuron gene product contain a Tudor domain are corroborated by more recent database search techniques such as PSI-BLAST (unpublished).
Probab=27.75 E-value=2.4e+02 Score=20.45 Aligned_cols=46 Identities=11% Similarity=0.052 Sum_probs=30.8
Q ss_pred CccCCcEEEEee-cCcceEEEEEEEcc-eeEEEEEeCC-CcEEEEeCccc
Q 010731 254 PFVINEWIQTKI-QGYEVSGTVEHVGW-WSPTIIRGDD-REAVHIPNHKF 300 (502)
Q Consensus 254 Pf~VGD~I~i~i-~g~~~~G~Ve~I~l-~~TT~irt~d-~~~v~IPNs~l 300 (502)
++++|+.+..+. +|.-..|+|+++.= .. -.+.=.| |....+|-+.+
T Consensus 2 ~~~~G~~~~a~~~d~~wyra~I~~~~~~~~-~~V~f~D~G~~~~v~~~~l 50 (57)
T smart00333 2 TFKVGDKVAARWEDGEWYRARIIKVDGEQL-YEVFFIDYGNEEVVPPSDL 50 (57)
T ss_pred CCCCCCEEEEEeCCCCEEEEEEEEECCCCE-EEEEEECCCccEEEeHHHe
Confidence 689999999876 66567788988874 22 3344444 66666664443
No 61
>TIGR01080 rplX_A_E ribosomal protein L24p/L26e, archaeal/eukaryotic. This model represents the archaeal and eukaryotic branch of the ribosomal protein L24p/L26e family. Bacterial and organellar forms are represented by the related TIGR01079.
Probab=27.37 E-value=67 Score=28.17 Aligned_cols=24 Identities=21% Similarity=0.383 Sum_probs=19.5
Q ss_pred CccCCcEEEEeecC--cceEEEEEEEc
Q 010731 254 PFVINEWIQTKIQG--YEVSGTVEHVG 278 (502)
Q Consensus 254 Pf~VGD~I~i~i~g--~~~~G~Ve~I~ 278 (502)
+++.||.|.| +.| .|.+|.|.+|.
T Consensus 41 ~IkkGD~V~V-i~Gk~KGk~GkV~~V~ 66 (114)
T TIGR01080 41 PVRKGDKVRI-MRGDFKGHEGKVSKVD 66 (114)
T ss_pred eeecCCEEEE-ecCCCCCCEEEEEEEE
Confidence 8999999998 665 35778998885
No 62
>PRK09459 pspG phage shock protein G; Reviewed
Probab=25.67 E-value=1.6e+02 Score=23.89 Aligned_cols=27 Identities=19% Similarity=0.299 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHhCCchHHHHHHHHHH
Q 010731 202 VWVAAVSLFMELLGFSTQRWLTAGGLG 228 (502)
Q Consensus 202 v~vi~~~~iL~~lG~~~~~lla~~Gi~ 228 (502)
++++++.+.+..-|++.-+.+++.+++
T Consensus 5 lFvl~F~~~LlvTGiSllgv~aAl~va 31 (76)
T PRK09459 5 LFVIGFFVMLLVTGISLLGIIAALGVA 31 (76)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence 445556666666677766666655554
No 63
>PF06107 DUF951: Bacterial protein of unknown function (DUF951); InterPro: IPR009296 This family consists of several short hypothetical bacterial proteins of unknown function.
Probab=25.43 E-value=1.8e+02 Score=22.29 Aligned_cols=45 Identities=13% Similarity=0.147 Sum_probs=32.1
Q ss_pred ccCCcEEEEe--ecCcceEEEEEEEcceeEEEEE-eCCCcEEEEeCcccc
Q 010731 255 FVINEWIQTK--IQGYEVSGTVEHVGWWSPTIIR-GDDREAVHIPNHKFT 301 (502)
Q Consensus 255 f~VGD~I~i~--i~g~~~~G~Ve~I~l~~TT~ir-t~d~~~v~IPNs~l~ 301 (502)
|.+||.|+.+ -.-|+..-.|..+|.-. +++ +-=|+.+.+|-+.|-
T Consensus 2 ~~vgDiV~mKK~HPCG~~~Wei~R~GaDi--kikC~gCg~~imlpR~~fe 49 (57)
T PF06107_consen 2 YEVGDIVEMKKPHPCGSNEWEIIRIGADI--KIKCLGCGRQIMLPRSKFE 49 (57)
T ss_pred ccCCCEEEEcCCCCCCCCEEEEEEccCcE--EEEECCCCCEEEEeHHHHH
Confidence 7899999984 22245677899988854 444 455888888877763
No 64
>PF13452 MaoC_dehydrat_N: N-terminal half of MaoC dehydratase; PDB: 3HMJ_H 2UV8_I 2VKZ_G 1S9C_K 3OML_A 3KHP_A.
Probab=25.42 E-value=1.5e+02 Score=25.62 Aligned_cols=19 Identities=11% Similarity=0.132 Sum_probs=13.3
Q ss_pred HHHHHHhcCCccCCcEEEE
Q 010731 245 SSVMIHATQPFVINEWIQT 263 (502)
Q Consensus 245 aGi~I~~~~Pf~VGD~I~i 263 (502)
++--+-+-+|.++||.|..
T Consensus 78 ~~~~~~~h~Pl~~Gd~l~~ 96 (132)
T PF13452_consen 78 GEQDIEFHRPLRPGDTLTA 96 (132)
T ss_dssp EEEEEEESS--BSSEEEEE
T ss_pred cCcEEEEeCCCCCCCEEEE
Confidence 4445677899999999996
No 65
>PF10929 DUF2811: Protein of unknown function (DUF2811); InterPro: IPR021231 This is a bacterial family of uncharacterised proteins.
Probab=25.34 E-value=51 Score=25.23 Aligned_cols=19 Identities=21% Similarity=0.459 Sum_probs=15.7
Q ss_pred HHHHHHHHHHcCCCccccc
Q 010731 333 IVADMRKVLAKNPQVEQQR 351 (502)
Q Consensus 333 i~~~l~~~l~~~~~i~~~~ 351 (502)
+-+.|+++++.||+|++.+
T Consensus 10 L~~~m~~fie~hP~WDQ~R 28 (57)
T PF10929_consen 10 LHQAMKDFIETHPNWDQYR 28 (57)
T ss_pred HHHHHHHHHHcCCCchHHH
Confidence 3356999999999999875
No 66
>TIGR01079 rplX_bact ribosomal protein L24, bacterial/organelle. This model recognizes bacterial and organellar forms of ribosomal protein L24. It excludes eukaryotic and archaeal forms, designated L26 in eukaryotes.
Probab=25.05 E-value=86 Score=26.98 Aligned_cols=26 Identities=19% Similarity=0.069 Sum_probs=20.1
Q ss_pred CccCCcEEEEeecC--cceEEEEEEEcce
Q 010731 254 PFVINEWIQTKIQG--YEVSGTVEHVGWW 280 (502)
Q Consensus 254 Pf~VGD~I~i~i~g--~~~~G~Ve~I~l~ 280 (502)
+++.||.|++ +.| .|-.|.|.+|.-.
T Consensus 3 ~ikkGD~V~V-i~G~dKGK~G~V~~V~~~ 30 (104)
T TIGR01079 3 KIKKGDTVKV-ISGKDKGKRGKVLKVLPK 30 (104)
T ss_pred cccCCCEEEE-eEcCCCCcEEEEEEEEcC
Confidence 6899999998 665 3567889888553
No 67
>PRK12585 putative monovalent cation/H+ antiporter subunit G; Reviewed
Probab=24.89 E-value=1.5e+02 Score=28.43 Aligned_cols=7 Identities=14% Similarity=0.221 Sum_probs=2.8
Q ss_pred HHHHHHH
Q 010731 327 VHKVNSI 333 (502)
Q Consensus 327 ~~~v~~i 333 (502)
+++.++-
T Consensus 128 ~~~~~~~ 134 (197)
T PRK12585 128 IEKARQE 134 (197)
T ss_pred HHHHHHh
Confidence 3444443
No 68
>PRK09014 rfaH transcriptional activator RfaH; Provisional
Probab=24.51 E-value=87 Score=28.65 Aligned_cols=26 Identities=4% Similarity=-0.028 Sum_probs=20.5
Q ss_pred cCCccCCcEEEEeecC--cceEEEEEEEc
Q 010731 252 TQPFVINEWIQTKIQG--YEVSGTVEHVG 278 (502)
Q Consensus 252 ~~Pf~VGD~I~i~i~g--~~~~G~Ve~I~ 278 (502)
..+|+.||.|.+ ++| .|.+|.|+++.
T Consensus 107 ~~~~~~G~~V~I-~~Gp~~g~eg~v~~~~ 134 (162)
T PRK09014 107 PETPKPGDKVII-TEGAFEGLQAIYTEPD 134 (162)
T ss_pred ccCCCCCCEEEE-ecCCCCCcEEEEEEeC
Confidence 356999999998 554 36789998886
No 69
>TIGR01129 secD protein-export membrane protein SecD. SecD from Mycobacterium tuberculosis has a long Pro-rich insert.
Probab=24.33 E-value=8.8e+02 Score=25.83 Aligned_cols=8 Identities=25% Similarity=0.555 Sum_probs=3.2
Q ss_pred HHHHHhCC
Q 010731 209 LFMELLGF 216 (502)
Q Consensus 209 ~iL~~lG~ 216 (502)
+.|..+|.
T Consensus 361 l~L~~~g~ 368 (397)
T TIGR01129 361 LILYVFGT 368 (397)
T ss_pred HHHHHHhc
Confidence 33444443
No 70
>PF11356 Pilus_PilP: Type IV pilus biogenesis; InterPro: IPR022753 Type IV pili are required for auto-agglutination, twitching motility, biofilm formation, adherence and DNA uptake during transformation []. PilP is an inner membrane protein, required for pilus expression and transformation []. PilP interacts with PilQ which suggests that the two proteins may have coordinated activity in functions such as pilus extrusion/retraction []. ; PDB: 3OSS_C 2LNV_A.
Probab=24.17 E-value=89 Score=25.26 Aligned_cols=34 Identities=9% Similarity=0.063 Sum_probs=23.3
Q ss_pred CCccCCcEEEEeecCcceEEEEEEEcceeEEEEEeCCCcEEE
Q 010731 253 QPFVINEWIQTKIQGYEVSGTVEHVGWWSPTIIRGDDREAVH 294 (502)
Q Consensus 253 ~Pf~VGD~I~i~i~g~~~~G~Ve~I~l~~TT~irt~d~~~v~ 294 (502)
+.+++||.|. + ...+|.+|+..+ +.+ ..+|+...
T Consensus 53 ~~~~~Gd~i~-----~-~g~~v~~I~~d~-Vvl-~~~G~~~~ 86 (87)
T PF11356_consen 53 RTYRVGDTIP-----G-SGWTVKSISPDR-VVL-ERNGRRET 86 (87)
T ss_dssp EEE-TTEE-S-----S-SSEEEEEEETTE-EEE-EETTEEEE
T ss_pred EEEECcCEeC-----C-CCEEEEEEeCCE-EEE-eeCCEEEE
Confidence 4689999884 2 137999999998 777 56666543
No 71
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=24.17 E-value=2.2e+02 Score=33.28 Aligned_cols=46 Identities=9% Similarity=0.061 Sum_probs=32.0
Q ss_pred CCccCCcEEEEeecCcceEEEEEEEcceeEEEEEeCCCcEEEEeCcccc
Q 010731 253 QPFVINEWIQTKIQGYEVSGTVEHVGWWSPTIIRGDDREAVHIPNHKFT 301 (502)
Q Consensus 253 ~Pf~VGD~I~i~i~g~~~~G~Ve~I~l~~TT~irt~d~~~v~IPNs~l~ 301 (502)
++|++||+|.+ .+.+..|+|.+|.=-. ......++-.+.+|-+.+.
T Consensus 635 ~~~~~Gd~V~v--~~~~~~g~v~~i~~~~-~~~V~~g~~k~~v~~~~l~ 680 (782)
T PRK00409 635 EELKVGDEVKY--LSLGQKGEVLSIPDDK-EAIVQAGIMKMKVPLSDLE 680 (782)
T ss_pred cCCCCCCEEEE--ccCCceEEEEEEcCCC-eEEEEECCEEEEEeHHHce
Confidence 56999999997 4456889999994111 2223345667788877774
No 72
>PF09871 DUF2098: Uncharacterized protein conserved in archaea (DUF2098); InterPro: IPR019209 This family of proteins have no known function.
Probab=24.16 E-value=93 Score=26.16 Aligned_cols=24 Identities=17% Similarity=0.425 Sum_probs=19.4
Q ss_pred CCccCCcEEEEeecCcceEEEEEEEc
Q 010731 253 QPFVINEWIQTKIQGYEVSGTVEHVG 278 (502)
Q Consensus 253 ~Pf~VGD~I~i~i~g~~~~G~Ve~I~ 278 (502)
+|+.+|+.|+- ++ -|..|.|.+|.
T Consensus 1 k~I~vGs~VRY-~~-TGT~G~V~diK 24 (91)
T PF09871_consen 1 KPIKVGSYVRY-IN-TGTVGKVVDIK 24 (91)
T ss_pred CcceeCCEEEE-CC-CCeEEEEEEEE
Confidence 58999999997 44 57889998873
No 73
>PRK05609 nusG transcription antitermination protein NusG; Validated
Probab=23.97 E-value=1.9e+02 Score=26.79 Aligned_cols=26 Identities=35% Similarity=0.599 Sum_probs=20.3
Q ss_pred cCCccCCcEEEEeecC--cceEEEEEEEc
Q 010731 252 TQPFVINEWIQTKIQG--YEVSGTVEHVG 278 (502)
Q Consensus 252 ~~Pf~VGD~I~i~i~g--~~~~G~Ve~I~ 278 (502)
..+|++||.|+| ++| .|.+|.|+++.
T Consensus 124 ~~~~~~Gd~VrI-~~GPf~G~~g~v~~i~ 151 (181)
T PRK05609 124 KVDFEVGEMVRV-IDGPFADFNGTVEEVD 151 (181)
T ss_pred ccCCCCCCEEEE-eccCCCCCEEEEEEEe
Confidence 357999999998 454 35788999885
No 74
>PRK11281 hypothetical protein; Provisional
Probab=23.94 E-value=1.4e+03 Score=28.03 Aligned_cols=7 Identities=14% Similarity=0.335 Sum_probs=3.6
Q ss_pred EEEEeCc
Q 010731 292 AVHIPNH 298 (502)
Q Consensus 292 ~v~IPNs 298 (502)
.+++||-
T Consensus 833 ~itl~~L 839 (1113)
T PRK11281 833 SITLGNL 839 (1113)
T ss_pred eeeHHHH
Confidence 4555553
No 75
>PF04791 LMBR1: LMBR1-like membrane protein; InterPro: IPR006876 This group of uncharacterised proteins have a conserved C-terminal region which is found in LMBR1 and in the lipocalin-1 receptor. LMBR1 was thought to play a role in preaxial polydactyly, but recent evidence now suggests this not to be the case [].
Probab=23.91 E-value=9.2e+02 Score=25.86 Aligned_cols=12 Identities=17% Similarity=0.357 Sum_probs=7.6
Q ss_pred HHHHHHHHHHHh
Q 010731 240 FTNFLSSVMIHA 251 (502)
Q Consensus 240 l~N~~aGi~I~~ 251 (502)
+.|++|-+.+.+
T Consensus 164 l~~~~Gl~l~i~ 175 (471)
T PF04791_consen 164 LSNFWGLFLFII 175 (471)
T ss_pred HHHHHHHHHHHH
Confidence 567777766543
No 76
>PRK02509 hypothetical protein; Provisional
Probab=23.43 E-value=1.3e+03 Score=27.64 Aligned_cols=16 Identities=13% Similarity=0.256 Sum_probs=8.9
Q ss_pred HHHHHHhhhhHHHHHH
Q 010731 229 TVLLTLAGREIFTNFL 244 (502)
Q Consensus 229 glalgfAaq~~l~N~~ 244 (502)
.+++|...-..+++|.
T Consensus 374 ~~v~g~i~P~~VQ~fv 389 (973)
T PRK02509 374 ILLIGWLLPEVVQSLI 389 (973)
T ss_pred HHHHHHHHHHHHhheE
Confidence 4455555555666554
No 77
>PHA00094 VI minor coat protein
Probab=23.41 E-value=5e+02 Score=22.64 Aligned_cols=31 Identities=19% Similarity=0.146 Sum_probs=19.5
Q ss_pred hhCChHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010731 59 LRGNPVILRLIPAAALVAFAAWGLVPLVRLGR 90 (502)
Q Consensus 59 ~~~~~~~~~~l~al~i~~~a~~~~~~l~r~i~ 90 (502)
++|-|.+...+.+++..+++.+ ..++.|.+.
T Consensus 4 llGIPaL~rfi~~la~~~~gyf-a~f~tk~ia 34 (112)
T PHA00094 4 LLGIPALARFLGTLAANLIGYF-AKFFTRGIA 34 (112)
T ss_pred hhCcHHHHHHHHHHHHHHHHHH-HHHHHHHHH
Confidence 5677777777777776666544 455555544
No 78
>PRK08582 hypothetical protein; Provisional
Probab=23.03 E-value=2.8e+02 Score=24.91 Aligned_cols=41 Identities=10% Similarity=0.130 Sum_probs=28.5
Q ss_pred ccCCcEEEEeecCcceEEEEEEEcceeEEEEEeCCCcEEEEeCcccccceE
Q 010731 255 FVINEWIQTKIQGYEVSGTVEHVGWWSPTIIRGDDREAVHIPNHKFTVNVV 305 (502)
Q Consensus 255 f~VGD~I~i~i~g~~~~G~Ve~I~l~~TT~irt~d~~~v~IPNs~l~~~~I 305 (502)
+++|+.+ .|+|.+|.=+- ..+...++..-.||.+.+....+
T Consensus 3 ~kvG~iv---------~G~V~~I~~fG-~fV~L~~~~~GlVhiSels~~~v 43 (139)
T PRK08582 3 IEVGSKL---------QGKVTGITNFG-AFVELPEGKTGLVHISEVADNYV 43 (139)
T ss_pred CcCCCEE---------EEEEEEEECCe-EEEEECCCCEEEEEeeccCcccc
Confidence 5667655 47888887776 77777777777788777765443
No 79
>PF02559 CarD_CdnL_TRCF: CarD-like/TRCF domain; InterPro: IPR003711 The bacterium Myxococcus xanthus responds to blue light by producing carotenoids. It also responds to starvation conditions by developing fruiting bodies, where the cells differentiate into myxospores. Each response entails the transcriptional activation of a separate set of genes. A single gene, carD, is required for the activation of both light- and starvation-inducible genes []. The predicted protein contains four repeats of a DNA-binding domain present in mammalian high mobility group I(Y) proteins and other nuclear proteins from animals and plants. Other peptide stretches on CarD also resemble functional domains typical of eukaryotic transcription factors, including a very acidic region and a leucine zipper. High mobility group yI(Y) proteins are known to bind the minor groove of A+T-rich DNA [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 3MLQ_H 2EYQ_A.
Probab=22.81 E-value=2.4e+02 Score=23.38 Aligned_cols=44 Identities=14% Similarity=0.262 Sum_probs=25.6
Q ss_pred ccCCcEEEEeecCcceEEEEEEEcceeE-------EEEEeCCCcEEEEeCcccc
Q 010731 255 FVINEWIQTKIQGYEVSGTVEHVGWWSP-------TIIRGDDREAVHIPNHKFT 301 (502)
Q Consensus 255 f~VGD~I~i~i~g~~~~G~Ve~I~l~~T-------T~irt~d~~~v~IPNs~l~ 301 (502)
|++||+|.- .+.| -|+|++|.-... -.++-.++..++||-....
T Consensus 2 f~~GD~VVh--~~~G-v~~i~~i~~~~~~~~~~~yy~L~~~~~~~i~vPv~~~~ 52 (98)
T PF02559_consen 2 FKIGDYVVH--PNHG-VGRIEGIEEIEFGGEKQEYYVLEYADDDTIYVPVDNAD 52 (98)
T ss_dssp --TTSEEEE--TTTE-EEEEEEEEEEECTTEEEEEEEEEECCCEEEEEECCCGG
T ss_pred CCCCCEEEE--CCCc-eEEEEEEEEEeeCCeeEEEEEEEECCCCEEEEEcCChh
Confidence 899999985 3333 377777655430 2345555557777766643
No 80
>cd03452 MaoC_C MaoC_C The C-terminal hot dog fold of the MaoC (monoamine oxidase C) dehydratase regulatory protein. Orthologs of MaoC include PaaZ [Escherichia coli] and PaaN [Pseudomonas putida], which are putative ring-opening enzymes involved in phenylacetic acid degradation. The C-terminal domain of MaoC has sequence similarity to (R)-specific enoyl-CoA hydratase,Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. MaoC also has an N-terminal PutA domain like that found in the E. coli PutA proline dehydrogenase and other members of the aldehyde dehydrogenase family.
Probab=22.81 E-value=2.1e+02 Score=25.36 Aligned_cols=16 Identities=19% Similarity=0.202 Sum_probs=13.8
Q ss_pred HHHhcCCccCCcEEEE
Q 010731 248 MIHATQPFVINEWIQT 263 (502)
Q Consensus 248 ~I~~~~Pf~VGD~I~i 263 (502)
-+-|.+|..+||.|.+
T Consensus 82 ~~rf~~PV~~GDtl~~ 97 (142)
T cd03452 82 NLRFLEPVYPGDTIQV 97 (142)
T ss_pred eEEECCCCCCCCEEEE
Confidence 4578899999999985
No 81
>PTZ00189 60S ribosomal protein L21; Provisional
Probab=22.70 E-value=1.6e+02 Score=27.32 Aligned_cols=15 Identities=7% Similarity=0.485 Sum_probs=12.1
Q ss_pred CCccCCcEEEEeecC
Q 010731 253 QPFVINEWIQTKIQG 267 (502)
Q Consensus 253 ~Pf~VGD~I~i~i~g 267 (502)
+-|++||.|.|++|+
T Consensus 32 ~~yk~GD~VdIk~d~ 46 (160)
T PTZ00189 32 TTFKVGDYVDIVVDS 46 (160)
T ss_pred HHccCCCEEEEEecC
Confidence 459999999996554
No 82
>PRK14725 pyruvate kinase; Provisional
Probab=22.66 E-value=1.3e+02 Score=33.95 Aligned_cols=82 Identities=10% Similarity=0.119 Sum_probs=49.2
Q ss_pred CccCCcEEEEeecCcceEEEEEEEccee-EEEEEe--------CCCcEEEEeCcccccceEEEccCCCc----eEEEEEE
Q 010731 254 PFVINEWIQTKIQGYEVSGTVEHVGWWS-PTIIRG--------DDREAVHIPNHKFTVNVVRNLSQKTH----WRIKTYL 320 (502)
Q Consensus 254 Pf~VGD~I~i~i~g~~~~G~Ve~I~l~~-TT~irt--------~d~~~v~IPNs~l~~~~I~N~sr~~~----~~i~~~i 320 (502)
-.++||.|-+ |+|...++|++++=.. .+++.+ .+++=+.+|++.+.-..++.-.+.+- .. .-.+
T Consensus 372 ~v~~G~~Vli--dDG~I~l~V~~~~~~~v~~~V~~a~~~gg~L~s~KGiNlP~~~l~lp~LTekD~~dl~f~~~~-vD~V 448 (608)
T PRK14725 372 AARVGERVWF--DDGKIGAVVVKVEADEVELRITHARPGGSKLKAGKGINLPDSHLPLPALTDKDLEDLAFVAKH-ADIV 448 (608)
T ss_pred hcCCCCEEEE--eCCeEEEEEEEEECCEEEEEEEEecCCCCEecCCCceecCCCCCCCCCCCHHHHHHHHHHHHh-CCEE
Confidence 3899999996 6778999999886222 122221 23445668888865443322222110 11 2357
Q ss_pred eecC-CCHHHHHHHHHHHH
Q 010731 321 AISH-LDVHKVNSIVADMR 338 (502)
Q Consensus 321 ~v~y-td~~~v~~i~~~l~ 338 (502)
.++| .+.++++.+.+.+.
T Consensus 449 alSFVrs~~DV~~lr~~L~ 467 (608)
T PRK14725 449 ALSFVRSPEDVRLLLDALE 467 (608)
T ss_pred EECCCCCHHHHHHHHHHHH
Confidence 8888 78888887644443
No 83
>PRK13692 (3R)-hydroxyacyl-ACP dehydratase subunit HadA; Provisional
Probab=22.47 E-value=2e+02 Score=26.41 Aligned_cols=15 Identities=13% Similarity=0.310 Sum_probs=13.1
Q ss_pred HHhcCCccCCcEEEE
Q 010731 249 IHATQPFVINEWIQT 263 (502)
Q Consensus 249 I~~~~Pf~VGD~I~i 263 (502)
+-+.+|.++||.+.+
T Consensus 91 ~~f~~PV~~GDtL~~ 105 (159)
T PRK13692 91 LKFEKPIVAGDKLYC 105 (159)
T ss_pred EEEeCCccCCCEEEE
Confidence 567899999999985
No 84
>cd01854 YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. All YjeQ family proteins display a unique domain architecture, which includes an N-terminal OB-fold RNA-binding domain, the central permuted GTPase domain, and a zinc knuckle-like C-terminal cysteine domain. This domain architecture suggests a role for YjeQ as a regulator of translation.
Probab=22.39 E-value=1.5e+02 Score=29.90 Aligned_cols=34 Identities=12% Similarity=0.263 Sum_probs=25.0
Q ss_pred CCccCCcEEEEeecCcceEEEEEEEcceeEEEEEeC
Q 010731 253 QPFVINEWIQTKIQGYEVSGTVEHVGWWSPTIIRGD 288 (502)
Q Consensus 253 ~Pf~VGD~I~i~i~g~~~~G~Ve~I~l~~TT~irt~ 288 (502)
.+.-|||||.+..++ +..|.|++|-=|. +.+...
T Consensus 33 ~~~~vGD~V~~~~~~-~~~~~i~~i~~R~-~~l~R~ 66 (287)
T cd01854 33 IKPVVGDWVEVEPDD-DGEGVIVRVLPRK-NLLSRP 66 (287)
T ss_pred CCccCCCEEEEEecC-CCcEEEEEEECCC-ceEEcc
Confidence 468999999985333 4569999999998 544433
No 85
>PRK05812 secD preprotein translocase subunit SecD; Reviewed
Probab=21.40 E-value=1.1e+03 Score=25.96 Aligned_cols=16 Identities=13% Similarity=-0.149 Sum_probs=7.4
Q ss_pred ChHHHHHHHHHHHHHH
Q 010731 62 NPVILRLIPAAALVAF 77 (502)
Q Consensus 62 ~~~~~~~l~al~i~~~ 77 (502)
+..+.+.+.++++.++
T Consensus 329 ~~~i~~~~~A~lig~i 344 (498)
T PRK05812 329 ADSIRAGLIAGLIGLA 344 (498)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3444445555444443
No 86
>COG0250 NusG Transcription antiterminator [Transcription]
Probab=21.07 E-value=95 Score=29.34 Aligned_cols=26 Identities=23% Similarity=0.232 Sum_probs=20.7
Q ss_pred CccCCcEEEEeecC--cceEEEEEEEcce
Q 010731 254 PFVINEWIQTKIQG--YEVSGTVEHVGWW 280 (502)
Q Consensus 254 Pf~VGD~I~i~i~g--~~~~G~Ve~I~l~ 280 (502)
-|.+||.|++ ++| .+..|.|++++--
T Consensus 123 ~~e~Gd~VrI-~~GpFa~f~g~V~evd~e 150 (178)
T COG0250 123 DFEPGDVVRI-IDGPFAGFKAKVEEVDEE 150 (178)
T ss_pred cCCCCCEEEE-eccCCCCccEEEEEEcCc
Confidence 4899999998 565 3577899998764
No 87
>cd04454 S1_Rrp4_like S1_Rrp4_like: Rrp4-like, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. Rrp4 protein, and Rrp40 and Csl4 proteins, also represented in this group, are subunits of the exosome complex. The exosome plays a central role in 3' to 5' RNA processing and degradation in eukarytes and archaea. Its functions include the removal of incorrectly processed RNA and the maintenance of proper levels of mRNA, rRNA and a number of small RNA species. In Saccharomyces cerevisiae, the exosome includes nine core components, six of which are homologous to bacterial RNase PH. These form a hexameric ring structure. The other three subunits (RrP4, Rrp40, and Csl4) contain an S1 RNA binding domain and are part of the "S1 pore structure".
Probab=20.96 E-value=2.3e+02 Score=22.41 Aligned_cols=38 Identities=13% Similarity=0.059 Sum_probs=26.1
Q ss_pred cCCcEEEEeecCcceEEEEEEEcceeEEEEEeCCCcEEEEeCcccccc
Q 010731 256 VINEWIQTKIQGYEVSGTVEHVGWWSPTIIRGDDREAVHIPNHKFTVN 303 (502)
Q Consensus 256 ~VGD~I~i~i~g~~~~G~Ve~I~l~~TT~irt~d~~~v~IPNs~l~~~ 303 (502)
++||.|. |+|.++.-.. ..+....+..-++|.+.+...
T Consensus 5 ~~GdiV~---------G~V~~v~~~~-~~V~i~~~~~g~l~~~~~~~~ 42 (82)
T cd04454 5 DVGDIVI---------GIVTEVNSRF-WKVDILSRGTARLEDSSATEK 42 (82)
T ss_pred CCCCEEE---------EEEEEEcCCE-EEEEeCCCceEEeechhccCc
Confidence 6788775 7888887766 666666666666777666543
No 88
>cd05698 S1_Rrp5_repeat_hs6_sc5 S1_Rrp5_repeat_hs6_sc5: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 6 (hs6) and S. cerevisiae S1 repeat 5 (sc5). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=20.86 E-value=1.8e+02 Score=22.03 Aligned_cols=38 Identities=13% Similarity=0.171 Sum_probs=28.8
Q ss_pred eEEEEEEEcceeEEEEEeCCCcEEEEeCcccccceEEEc
Q 010731 270 VSGTVEHVGWWSPTIIRGDDREAVHIPNHKFTVNVVRNL 308 (502)
Q Consensus 270 ~~G~Ve~I~l~~TT~irt~d~~~v~IPNs~l~~~~I~N~ 308 (502)
+.|+|.++.=.- ..+.-.++-.-.+|.+.+....+.|.
T Consensus 4 ~~g~V~~v~~~G-~~V~l~~~~~gli~~s~l~~~~~~~~ 41 (70)
T cd05698 4 THGTIVKVKPNG-CIVSFYNNVKGFLPKSELSEAFIKDP 41 (70)
T ss_pred EEEEEEEEecCc-EEEEECCCCEEEEEHHHcChhhcCCH
Confidence 568898888776 77777777888999998876555443
No 89
>PRK04439 S-adenosylmethionine synthetase; Provisional
Probab=20.74 E-value=3.5e+02 Score=28.90 Aligned_cols=80 Identities=13% Similarity=0.271 Sum_probs=54.7
Q ss_pred EEEEeecCCCHHHHHHHHHHHHHHHH------cCCCccccccceEEEEEeecCCCCeeEEEEEEEEec---CChhhHHHH
Q 010731 317 KTYLAISHLDVHKVNSIVADMRKVLA------KNPQVEQQRLHRRVFLENINPESQSLNILVSCFVKT---SRFEEYLCV 387 (502)
Q Consensus 317 ~~~i~v~ytd~~~v~~i~~~l~~~l~------~~~~i~~~~~~p~v~v~~~~~~~~~v~i~v~~~v~~---~~~~~~~~v 387 (502)
...+++.|-|....++++-++++++. .+|.+-.+ +.+-++-. +..+.++|-+-.-+ .+-.+|...
T Consensus 156 DTS~gVGyAPlS~~E~~Vl~~E~~lns~~~k~~~P~~GeD-----iKVMG~R~-g~~i~lTVa~a~v~r~v~~~~~Y~~~ 229 (399)
T PRK04439 156 DTSFGVGYAPLSETERLVLETERYLNSEEFKKRFPEVGED-----IKVMGLRN-GDEITLTIAMALVDRYVNDVDEYFEV 229 (399)
T ss_pred cccceeecCCCCHHHHHHHHHHHHhcCcchhhcCCCcCCC-----eEEEEEEc-CCEEEEEEEhHHhhhhcCCHHHHHHH
Confidence 57889999999999999888899985 44444332 22333322 34566666543322 255789999
Q ss_pred HHHHHHHHHHHHHHC
Q 010731 388 KEAILLDLLHVISHH 402 (502)
Q Consensus 388 r~~l~~~i~~~~~~~ 402 (502)
++++...+.+...+.
T Consensus 230 k~~v~~~v~~~a~~~ 244 (399)
T PRK04439 230 KEEVKEKVEDLAQKY 244 (399)
T ss_pred HHHHHHHHHHHHHhh
Confidence 999999999988665
No 90
>PF08566 Pam17: Mitochondrial import protein Pam17; InterPro: IPR013875 The presequence translocase-associated motor (PAM) drives the completion of preprotein translocation into the mitochondrial matrix. The Pam17 subunit is required for formation of a stable complex between cochaperones Pam16 and Pam18 and promotes the association of Pam16-Pam18 with the presequence translocase []. Mitochondria lacking Pam17 are selectively impaired in the import of matrix proteins [].
Probab=20.60 E-value=3.9e+02 Score=25.24 Aligned_cols=35 Identities=11% Similarity=0.018 Sum_probs=29.1
Q ss_pred HhCCchHHHHHHHHHHHHHHHHhhhhHHHHHHHHH
Q 010731 213 LLGFSTQRWLTAGGLGTVLLTLAGREIFTNFLSSV 247 (502)
Q Consensus 213 ~lG~~~~~lla~~Gi~glalgfAaq~~l~N~~aGi 247 (502)
++|+++--+++.+++++.++|+....+++|.+=.+
T Consensus 71 I~GlDP~~~~g~~t~a~g~lG~L~GP~~G~~vf~l 105 (173)
T PF08566_consen 71 IMGLDPFMVYGLATLACGALGWLVGPSLGNQVFRL 105 (173)
T ss_pred ccCcCHHHHHHHHHHHHHHHHHHhcchHHHHHHHH
Confidence 45888888889999999999999999988876443
No 91
>PF01941 AdoMet_Synthase: S-adenosylmethionine synthetase (AdoMet synthetase); InterPro: IPR002795 A highly diverged class of S-adenosylmethionine synthetases have been identified in the archaea. S-adenosylmethionine is the primary alkylating agent in all known organisms. ATP:L-methionine S-adenosyltransferase (MAT) catalyses the only known biosynthetic route to this central metabolite. Although the amino acid sequence of MAT is strongly conserved among bacteria and eukarya (see IPR002133 from INTERPRO) no homologues had been recognised in the completed genome sequences of any archaea. The identification of a second major class of MAT emphasises the long evolutionary history of the archaeal lineage and the structural diversity found even in crucial metabolic enzymes []. Three bacterial genomes encode both the archaeal and eukaryotic/bacterial types of MAT [].; GO: 0004478 methionine adenosyltransferase activity, 0005524 ATP binding, 0006730 one-carbon metabolic process
Probab=20.58 E-value=4.3e+02 Score=28.26 Aligned_cols=80 Identities=13% Similarity=0.225 Sum_probs=55.6
Q ss_pred EEEEeecCCCHHHHHHHHHHHHHHHHcCC------CccccccceEEEEEeecCCCCeeEEEEEEEEec---CChhhHHHH
Q 010731 317 KTYLAISHLDVHKVNSIVADMRKVLAKNP------QVEQQRLHRRVFLENINPESQSLNILVSCFVKT---SRFEEYLCV 387 (502)
Q Consensus 317 ~~~i~v~ytd~~~v~~i~~~l~~~l~~~~------~i~~~~~~p~v~v~~~~~~~~~v~i~v~~~v~~---~~~~~~~~v 387 (502)
...++|.|-|....++++-++++.+.+.. .+-.+ +.+-++-. +..+.++|-+-.-+ .+-.+|...
T Consensus 156 DTS~gVGyAPlS~~E~~Vl~~Er~lns~~fk~~~p~~GeD-----iKVMG~R~-g~~i~LTvA~a~v~r~v~~~~~Y~~~ 229 (396)
T PF01941_consen 156 DTSFGVGYAPLSETEKLVLETERYLNSPEFKKKFPEVGED-----IKVMGLRE-GDKITLTVAMAFVDRYVSSLDEYFER 229 (396)
T ss_pred CccceeccCCccHHHHHHHHHHHHhccccccccCCCcCCC-----eEEEEEEe-CCEEEEEEEhhhhhhhcCCHHHHHHH
Confidence 47889999999999999888999988753 22221 22333322 34566666553322 255789999
Q ss_pred HHHHHHHHHHHHHHC
Q 010731 388 KEAILLDLLHVISHH 402 (502)
Q Consensus 388 r~~l~~~i~~~~~~~ 402 (502)
|+++...+.+...+.
T Consensus 230 k~~v~~~v~~~a~~~ 244 (396)
T PF01941_consen 230 KEEVKEEVEDYAAKY 244 (396)
T ss_pred HHHHHHHHHHHHHHh
Confidence 999999999988775
No 92
>cd03454 YdeM YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit.
Probab=20.49 E-value=2.3e+02 Score=24.72 Aligned_cols=16 Identities=6% Similarity=0.109 Sum_probs=14.0
Q ss_pred HHHhcCCccCCcEEEE
Q 010731 248 MIHATQPFVINEWIQT 263 (502)
Q Consensus 248 ~I~~~~Pf~VGD~I~i 263 (502)
-+-|.+|..+||.|.+
T Consensus 82 ~~~f~~pv~~Gd~l~~ 97 (140)
T cd03454 82 ELRWPRPVRPGDTLSV 97 (140)
T ss_pred eeEeCCCCCCCCEEEE
Confidence 4678999999999986
No 93
>PF09583 Phageshock_PspG: Phage shock protein G (Phageshock_PspG); InterPro: IPR014318 This protein previously was designated yjbO in Escherichia coli. It is found only in genomes that have the phage shock operon (psp), but it is only rarely encoded near other psp genes. The psp regulon is upregulated in response to a number of stress conditions, including ethanol, expression of the filamentous phage secretin protein IV and other secretins and heat shock.
Probab=20.33 E-value=2.4e+02 Score=22.14 Aligned_cols=29 Identities=17% Similarity=0.155 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHhCCchHHHHHHHHHHHH
Q 010731 202 VWVAAVSLFMELLGFSTQRWLTAGGLGTV 230 (502)
Q Consensus 202 v~vi~~~~iL~~lG~~~~~lla~~Gi~gl 230 (502)
++++++...+..-|++.-+.++..+++.+
T Consensus 5 iFvl~F~~~Ll~TGvsllgv~aA~~va~~ 33 (65)
T PF09583_consen 5 IFVLGFFAMLLVTGVSLLGVLAALAVAFA 33 (65)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence 44555556666668877666666555543
No 94
>PF11282 DUF3082: Protein of unknown function (DUF3082); InterPro: IPR021434 This family of proteins has no known function.
Probab=20.08 E-value=5e+02 Score=21.40 Aligned_cols=25 Identities=20% Similarity=0.095 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcc
Q 010731 156 TVLAFAYCLSSLIQQIQKFLTEAND 180 (502)
Q Consensus 156 ~il~~~~~~~~li~~~~~~~~~~~~ 180 (502)
+...++|.++.+...+...+..+.-
T Consensus 13 ~ag~la~~ly~lt~~i~~~fa~~p~ 37 (82)
T PF11282_consen 13 IAGGLAYGLYFLTTSIAASFASKPI 37 (82)
T ss_pred HHHHHHHHHHHHHHHHHHHHccCCC
Confidence 4556788888888888777766654
No 95
>TIGR02286 PaaD phenylacetic acid degradation protein PaaD. Sequences scoring between trusted and noise include those from archaea and other species not known to catabolize phenylacetic acid and which are not adjacent to other genes potentially involved with such a pathway.
Probab=20.06 E-value=2.2e+02 Score=23.99 Aligned_cols=38 Identities=16% Similarity=0.159 Sum_probs=24.5
Q ss_pred HHHhcCCccCCcEEEEeecCcceEEEEEEEcc----eeEEEEEeCCCcEE
Q 010731 248 MIHATQPFVINEWIQTKIQGYEVSGTVEHVGW----WSPTIIRGDDREAV 293 (502)
Q Consensus 248 ~I~~~~Pf~VGD~I~i~i~g~~~~G~Ve~I~l----~~TT~irt~d~~~v 293 (502)
-+-|-+|.+.||++.+ .++|.+.|= .. +.+.+.+|+++
T Consensus 63 ~i~f~rp~~~G~~l~~-------~a~v~~~g~~~~~~~-~~i~~~~~~~v 104 (114)
T TIGR02286 63 TIDFLRPGRAGERLEA-------EAVEVSRGGRTGTYD-VEVVNQEGELV 104 (114)
T ss_pred EEEEecCCCCCCEEEE-------EEEEEEeCCcEEEEE-EEEEcCCCCEE
Confidence 4678899999999985 366666433 33 44555555544
No 96
>PRK08187 pyruvate kinase; Validated
Probab=20.01 E-value=2e+02 Score=31.66 Aligned_cols=82 Identities=10% Similarity=0.155 Sum_probs=47.2
Q ss_pred CCccCCcEEEEeecCcceEEEEEEEccee-E-EEEE-------eCCCcEEEEeCcccccceEEEccCCC----ceEEEEE
Q 010731 253 QPFVINEWIQTKIQGYEVSGTVEHVGWWS-P-TIIR-------GDDREAVHIPNHKFTVNVVRNLSQKT----HWRIKTY 319 (502)
Q Consensus 253 ~Pf~VGD~I~i~i~g~~~~G~Ve~I~l~~-T-T~ir-------t~d~~~v~IPNs~l~~~~I~N~sr~~----~~~i~~~ 319 (502)
+-+++||.|-+ |+|...++|++++=.. . +..+ -..++-+.+|+..+--+.++---..+ ...+ -.
T Consensus 251 ~~v~~Gd~Ili--dDG~I~l~V~~v~~~~v~~~V~~~~~~gg~L~~~KgiNlP~~~vrin~LtekD~~DL~f~~~~v-D~ 327 (493)
T PRK08187 251 ARLAVGARVWI--DDGKLGARVERVGPGGALLEVTHARPKGLKLKPEKGLNFPDTALDLPALTEKDRADLDFVARHA-DL 327 (493)
T ss_pred HhcCCCCEEEE--eCCeEEEEEEEEeCCEEEEEEEEecCCCeEecCCCcccccCceecCCCCCHhHHHHHHHHHhcC-CE
Confidence 34899999996 7778999999987222 0 1111 12334456888876544432111111 0111 23
Q ss_pred EeecC-CCHHHHHHHHHHH
Q 010731 320 LAISH-LDVHKVNSIVADM 337 (502)
Q Consensus 320 i~v~y-td~~~v~~i~~~l 337 (502)
+.+++ .+.++++.+.+.+
T Consensus 328 I~lSfV~saeDV~~l~~~L 346 (493)
T PRK08187 328 VGYSFVQSPGDVEALQAAL 346 (493)
T ss_pred EEECCCCCHHHHHHHHHHH
Confidence 67788 6888888764444
Done!