Query 012779
Match_columns 456
No_of_seqs 231 out of 1961
Neff 5.7
Searched_HMMs 46136
Date Fri Mar 29 06:13:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012779.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/012779hhsearch_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 3.5E-28 7.7E-33 243.1 23.5 159 283-447 25-198 (286)
2 PRK11465 putative mechanosensi 99.9 3.7E-25 8.1E-30 243.0 32.0 196 243-448 417-640 (741)
3 PRK10929 putative mechanosensi 99.9 9.2E-24 2E-28 240.6 29.5 163 286-453 833-1013(1109)
4 PRK11281 hypothetical protein; 99.9 1.2E-22 2.7E-27 232.1 33.4 158 285-447 835-1008(1113)
5 COG0668 MscS Small-conductance 99.9 2.1E-20 4.6E-25 185.9 26.3 122 323-447 79-217 (316)
6 COG3264 Small-conductance mech 99.9 2.3E-20 5E-25 204.6 26.6 162 286-452 558-737 (835)
7 PF00924 MS_channel: Mechanose 99.8 3.3E-21 7.2E-26 181.8 11.1 121 332-455 2-140 (206)
8 KOG4629 Predicted mechanosensi 98.0 8.5E-06 1.8E-10 90.6 5.4 120 325-447 478-613 (714)
9 PF05552 TM_helix: Conserved T 88.0 0.94 2E-05 34.2 4.3 38 282-319 11-48 (53)
10 PRK10334 mechanosensitive chan 85.1 46 0.001 33.7 17.0 59 197-269 24-82 (286)
11 PF05552 TM_helix: Conserved T 74.0 6.5 0.00014 29.6 4.4 33 199-231 13-45 (53)
12 COG0053 MMT1 Predicted Co/Zn/C 69.6 1.2E+02 0.0026 31.0 13.8 63 332-400 159-221 (304)
13 PF12794 MscS_TM: Mechanosensi 67.7 1.6E+02 0.0034 30.6 17.8 107 244-356 113-223 (340)
14 PF12794 MscS_TM: Mechanosensi 61.5 2.1E+02 0.0045 29.7 18.5 49 322-370 117-167 (340)
15 PF09953 DUF2187: Uncharacteri 56.2 17 0.00038 28.3 3.7 28 390-418 3-31 (57)
16 PRK11281 hypothetical protein; 53.0 5.1E+02 0.011 31.6 21.3 28 323-350 612-639 (1113)
17 PRK10263 DNA translocase FtsK; 52.9 3.5E+02 0.0076 33.5 15.2 18 359-376 141-158 (1355)
18 COG4956 Integral membrane prot 52.7 3E+02 0.0064 28.9 13.5 56 246-307 76-131 (356)
19 PF05957 DUF883: Bacterial pro 52.4 95 0.002 25.9 8.0 43 160-202 35-80 (94)
20 PF14801 GCD14_N: tRNA methylt 51.1 10 0.00023 29.2 1.7 23 388-410 3-25 (54)
21 smart00739 KOW KOW (Kyprides, 43.9 36 0.00078 21.4 3.2 20 390-409 1-25 (28)
22 PRK10929 putative mechanosensi 42.6 7.2E+02 0.016 30.4 16.7 67 244-310 586-655 (1109)
23 PRK11465 putative mechanosensi 40.7 6.5E+02 0.014 29.3 23.1 142 289-435 463-610 (741)
24 PRK13692 (3R)-hydroxyacyl-ACP 38.2 1.9E+02 0.004 26.7 8.3 61 383-446 89-150 (159)
25 PF14348 DUF4400: Domain of un 37.4 3.6E+02 0.0079 25.5 11.6 77 296-378 117-196 (198)
26 PRK10404 hypothetical protein; 35.2 2.3E+02 0.0051 24.4 7.8 15 188-202 73-87 (101)
27 PF12961 DUF3850: Domain of Un 31.7 65 0.0014 26.4 3.6 13 388-400 26-38 (72)
28 PF13726 Na_H_antiport_2: Na+- 31.3 87 0.0019 26.6 4.4 46 338-383 4-50 (88)
29 PF00467 KOW: KOW motif; Inte 29.3 81 0.0017 21.2 3.2 19 393-411 1-24 (32)
30 COG4873 Uncharacterized protei 28.6 73 0.0016 25.8 3.3 37 389-425 22-59 (81)
31 PRK10132 hypothetical protein; 25.5 4.3E+02 0.0093 23.1 7.9 18 189-206 80-97 (108)
32 TIGR02266 gmx_TIGR02266 Myxoco 25.1 1.4E+02 0.003 24.2 4.6 24 376-399 21-45 (96)
33 PF11188 DUF2975: Protein of u 24.2 4.5E+02 0.0099 22.5 14.6 25 245-269 53-77 (136)
34 COG0382 UbiA 4-hydroxybenzoate 23.3 7.5E+02 0.016 24.7 10.6 14 256-269 19-32 (289)
35 PF05957 DUF883: Bacterial pro 23.0 4.4E+02 0.0095 21.8 8.3 12 206-217 80-91 (94)
36 COG1030 NfeD Membrane-bound se 22.9 5.5E+02 0.012 28.0 9.6 25 244-268 219-243 (436)
37 PF11449 DUF2899: Protein of u 22.9 5.7E+02 0.012 26.4 9.4 44 325-368 177-224 (298)
38 COG4575 ElaB Uncharacterized c 22.7 4.8E+02 0.01 22.9 7.4 26 186-211 74-99 (104)
39 PRK13892 conjugal transfer pro 22.3 3.8E+02 0.0082 24.5 7.0 66 244-309 42-110 (134)
40 cd04466 S1_YloQ_GTPase S1_YloQ 22.2 93 0.002 23.7 2.8 12 389-400 36-47 (68)
41 PF03908 Sec20: Sec20; InterP 20.6 4.4E+02 0.0095 21.8 6.8 25 196-220 67-91 (92)
42 PRK05585 yajC preprotein trans 20.3 1E+02 0.0022 26.9 2.9 20 391-410 53-73 (106)
No 1
>PRK10334 mechanosensitive channel MscS; Provisional
Probab=99.96 E-value=3.5e-28 Score=243.12 Aligned_cols=159 Identities=20% Similarity=0.227 Sum_probs=147.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchHHHHHHHHHHHHHHHHHHHHHHHHHhCCchHHHHHHHH
Q 012779 283 SQYLAQAWRGAVILSFVWFLHRWKTNVFTRAMASQSIAGLDREKMLALDRISSVGLFVIGLMALAEACGVAVQSILTVGG 362 (456)
Q Consensus 283 ~~~l~~il~~~iIl~i~~~l~r~l~~~i~~~l~~~~~~~~~~~~i~~i~~i~kili~ii~iiiiL~~lGi~~~sLLa~lG 362 (456)
..+.++++.++++++++|++.|++..++.+.+.++.. +++....+.++++++++++++++++..+|++.+++++++|
T Consensus 25 ~~~~~~i~~al~il~~~~~~~~~i~~~~~~~~~~~~~---~~~~~~~~~~~~~~~i~~~~~~~~l~~lGi~~~~l~a~~G 101 (286)
T PRK10334 25 LSYAVNIVAALAIIIVGLIIARMISNAVNRLMISRKI---DATVADFLSALVRYGIIAFTLIAALGRVGVQTASVIAVLG 101 (286)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC---ChHHHHHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHH
Confidence 4577889999999999999999999999888755433 6677888999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCcEEEECCceeeEE---------------EEEEeceeeeeeEEEEccCC
Q 012779 363 IGGVATAFASRDVLGNVLSGLSMQFSKPFSLGDTIKVKRAYTPLK---------------MIFISFFQIGNKVCRSRDFM 427 (456)
Q Consensus 363 v~GlalgLAaqD~L~Nl~AGI~I~~~rPFrVGD~I~I~g~~G~Ve---------------~I~IPNs~I~~~~I~N~t~~ 427 (456)
++|+++|||+||+++|++||++|+++|||++||||+++|.+|+|+ .+.+||+++.++.++|+|.+
T Consensus 102 ~~glaiG~a~q~~l~N~~sGi~i~~~rpf~vGD~I~i~~~~G~V~~I~~r~T~i~t~d~~~v~IPNs~~~~~~i~N~s~~ 181 (286)
T PRK10334 102 AAGLAVGLALQGSLSNLAAGVLLVMFRPFRAGEYVDLGGVAGTVLSVQIFSTTMRTADGKIIVIPNGKIIAGNIINFSRE 181 (286)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCEEEECCEEEEEEEEEeEEEEEEcCCCCEEEEcchHhcCCeeEEcCCC
Confidence 999999999999999999999999999999999999999999998 56899999999999999999
Q ss_pred CceEEEEEeeeEEeeCCCCh
Q 012779 428 LKQRLSVFLTTIHRSCHTCP 447 (456)
Q Consensus 428 ~~rRi~~~~t~igv~Ydt~p 447 (456)
+.||+.+. ++++||+|+
T Consensus 182 ~~rr~~~~---v~V~y~~d~ 198 (286)
T PRK10334 182 PVRRNEFI---IGVAYDSDI 198 (286)
T ss_pred CeEEEEEE---EEecCCCCH
Confidence 88999999 999999986
No 2
>PRK11465 putative mechanosensitive channel protein; Provisional
Probab=99.95 E-value=3.7e-25 Score=242.99 Aligned_cols=196 Identities=14% Similarity=0.152 Sum_probs=150.1
Q ss_pred cccccchHHHHHHHHHHHHHHHHHHHHHHHHHhh-cch----hhHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHH
Q 012779 243 IEQVPYEKSFWGALEDPVRYLITFMAFVQIGMMV-APT----TIASQYLAQAWRGAVIL---SFVWFLHRWKTNVFTRAM 314 (456)
Q Consensus 243 kt~~~~d~~l~~~L~~Pl~l~i~li~~~~l~~~~-~p~----~~~~~~l~~il~~~iIl---~i~~~l~r~l~~~i~~~l 314 (456)
++.+.|++.+.+.++ |+.++++++++......+ ... ......+..+..+++++ .++|.+.+ ..+++.+
T Consensus 417 ~r~~~~~~~~l~~lr-~l~~~~~vl~ll~a~~~l~l~~~~~~~~g~~~i~~l~~i~iil~i~~v~w~l~~---~~ie~~l 492 (741)
T PRK11465 417 KRLNGWLSAALKTAR-ILTVCVAVMLLLNAWGLFDFWNWLQNGAGEKTVDILIRIALILFFSAVGWTVLA---SLIENRL 492 (741)
T ss_pred HHHhhhhHHHHHHHH-HHHHHHHHHHHHHHHHhcchHhhhccchHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHH
Confidence 467889999999888 888877777664322211 111 11223344444444444 55555544 3333333
Q ss_pred hhc-----cccccchHHHHHHHHHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Q 012779 315 ASQ-----SIAGLDREKMLALDRISSVGLFVIGLMALAEACGVAVQSILTVGGIGGVATAFASRDVLGNVLSGLSMQFSK 389 (456)
Q Consensus 315 ~~~-----~~~~~~~~~i~~i~~i~kili~ii~iiiiL~~lGi~~~sLLa~lGv~GlalgLAaqD~L~Nl~AGI~I~~~r 389 (456)
.++ .....+++..+.+++++++++++++++++++.+|++++++++++|++|+++|||+|++++|+++|++|+++|
T Consensus 493 ~~~~~~~~~~~~r~~Tl~~ll~~~~~~~i~~i~~l~vL~~lGi~it~LlA~aGi~GlaiGfaaQ~~l~N~isGi~Il~e~ 572 (741)
T PRK11465 493 ASDIHGRPLPSARTRTLLTLFRNALAVIISTITIMIVLSEIGVNIAPLLAGAGALGLAISFGSQTLVKDIITGVFIQFEN 572 (741)
T ss_pred hhhhhcchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 211 111235677889999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCcEEEECCceeeEEE---------------EEEeceeeeeeEEEEccCCCceEEEEEeeeEEeeCCCChH
Q 012779 390 PFSLGDTIKVKRAYTPLKM---------------IFISFFQIGNKVCRSRDFMLKQRLSVFLTTIHRSCHTCPI 448 (456)
Q Consensus 390 PFrVGD~I~I~g~~G~Ve~---------------I~IPNs~I~~~~I~N~t~~~~rRi~~~~t~igv~Ydt~p~ 448 (456)
||++||||+++|.+|+||+ +.+||+++.+ ++|++++ .+|+.++ ++|+|++|.+
T Consensus 573 pf~vGD~I~v~g~~GtVe~I~lRsT~iRt~dg~~i~IPNs~i~~--v~N~Sr~-~~~~~v~---v~V~Y~~Did 640 (741)
T PRK11465 573 GMNTGDLVTIGPLTGTVERMSIRSVGVRQDTGAYHIIPWSSITT--FANFVRG-IGSVVAN---YDVDRHEDAD 640 (741)
T ss_pred CcCCCCEEEECCeEEEEEEEeeeEEEEEcCCCCEEEEECCccee--eEEeccC-ceEEEEE---EEeCCCCCHH
Confidence 9999999999999999984 5899999974 9999976 5578888 9999999864
No 3
>PRK10929 putative mechanosensitive channel protein; Provisional
Probab=99.93 E-value=9.2e-24 Score=240.63 Aligned_cols=163 Identities=18% Similarity=0.231 Sum_probs=146.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchHHHHHHHHHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHH
Q 012779 286 LAQAWRGAVILSFVWFLHRWKTNVFTRAMASQSIAGLDREKMLALDRISSVGLFVIGLMALAEACGVAVQSILTVGGIGG 365 (456)
Q Consensus 286 l~~il~~~iIl~i~~~l~r~l~~~i~~~l~~~~~~~~~~~~i~~i~~i~kili~ii~iiiiL~~lGi~~~sLLa~lGv~G 365 (456)
+.+++.+++++++++++.|.+..++++.+.++. +.++....++.++++++++++++++++..+|++.+++.+.+|++|
T Consensus 833 l~~ll~AllIliv~~~l~r~l~~lle~~l~~~~--~l~~~~~~~i~~l~~y~I~~ig~l~~L~~lGI~~t~l~al~galG 910 (1109)
T PRK10929 833 LGSVLIAILVFIITTQLVRNLPALLELALLQHL--DLTPGTGYAITTITKYLLMLIGGLVGFSMIGIEWSKLQWLVAALG 910 (1109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc--CCChhHHHHHHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHH
Confidence 567888999999999999999999988764332 236677888999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcCCCCCCcEEEECCceeeEE---------------EEEEeceeeeeeEEEEccCCCc-
Q 012779 366 VATAFASRDVLGNVLSGLSMQFSKPFSLGDTIKVKRAYTPLK---------------MIFISFFQIGNKVCRSRDFMLK- 429 (456)
Q Consensus 366 lalgLAaqD~L~Nl~AGI~I~~~rPFrVGD~I~I~g~~G~Ve---------------~I~IPNs~I~~~~I~N~t~~~~- 429 (456)
+++|||+||+++|++||++|+++|||++||||+++|.+|+|+ +|.|||+++.+..++|||..+.
T Consensus 911 VgIGfAlQ~ilsNfiSGIiIL~erPfrVGD~I~I~~~~GtV~~I~lRsT~Irt~Dg~~IiIPNs~~it~~IiN~S~~d~~ 990 (1109)
T PRK10929 911 VGLGFGLQEIFANFISGLIILFEKPIRIGDTVTIRDLTGSVTKINTRATTISDWDRKEIIVPNKAFITEQFINWSLSDSV 990 (1109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCCCCCCEEEECCEEEEEEEEeeeEEEEEeCCCCEEEEEChhhhcCceEecCCCCcc
Confidence 999999999999999999999999999999999999999997 6799999999999999998875
Q ss_pred eEEEEEeeeEEeeCCCCh--HHHHHh
Q 012779 430 QRLSVFLTTIHRSCHTCP--IREVLN 453 (456)
Q Consensus 430 rRi~~~~t~igv~Ydt~p--~rev~~ 453 (456)
+|+.+. |||+|++|+ .+++++
T Consensus 991 ~Rv~i~---VgV~Y~sDie~v~~iL~ 1013 (1109)
T PRK10929 991 TRVVLT---IPAPADANSEEVTEILL 1013 (1109)
T ss_pred eEEEEE---EEeCCCCCHHHHHHHHH
Confidence 699999 999999986 444443
No 4
>PRK11281 hypothetical protein; Provisional
Probab=99.92 E-value=1.2e-22 Score=232.10 Aligned_cols=158 Identities=15% Similarity=0.199 Sum_probs=143.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchHHHHHHHHHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHH
Q 012779 285 YLAQAWRGAVILSFVWFLHRWKTNVFTRAMASQSIAGLDREKMLALDRISSVGLFVIGLMALAEACGVAVQSILTVGGIG 364 (456)
Q Consensus 285 ~l~~il~~~iIl~i~~~l~r~l~~~i~~~l~~~~~~~~~~~~i~~i~~i~kili~ii~iiiiL~~lGi~~~sLLa~lGv~ 364 (456)
.+++++.++++++++|++.|++..+++.+..++. ..++.....+.++++++++++++++++..+|++.+++.+.+|++
T Consensus 835 tl~~Ll~allIl~i~~~l~r~l~~ll~~~~~~rl--~l~~~~~~~i~~li~y~I~~i~iliaL~~lGi~~t~L~~l~gaL 912 (1113)
T PRK11281 835 TLGNLLFALIILVVTYVLVRNLPGLLEVLVLSRL--NLRQGTSYAITTLLTYIIIAVGAVTAFSTLGVSWDKLQWLVAAL 912 (1113)
T ss_pred eHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc--cCCchHHHHHHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHH
Confidence 5788999999999999999999998877653322 12445667789999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcCCCCCCcEEEECCceeeEE---------------EEEEeceeeeeeEEEEccCCCc
Q 012779 365 GVATAFASRDVLGNVLSGLSMQFSKPFSLGDTIKVKRAYTPLK---------------MIFISFFQIGNKVCRSRDFMLK 429 (456)
Q Consensus 365 GlalgLAaqD~L~Nl~AGI~I~~~rPFrVGD~I~I~g~~G~Ve---------------~I~IPNs~I~~~~I~N~t~~~~ 429 (456)
|+++|||+||+++|++||++|+++|||++||+|+++|.+|+|+ +|.|||+.+.+..++|||..+.
T Consensus 913 gVgIGfglQ~ilsNfISGiiIl~eRPfrIGD~I~I~~~~G~V~~I~lRsT~Irt~D~~~ViIPNs~~~t~~IiN~S~~~~ 992 (1113)
T PRK11281 913 SVGLGFGLQEIFANFVSGLIILFERPVRIGDTVTIGTFSGTVSKIRIRATTITDFDRKEVIVPNKAFVTERLINWSLSDT 992 (1113)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCcCCCCEEEECCEEEEEEEEEeEEEEEEcCCCCEEEEechhhhcCceEeCCCCCc
Confidence 9999999999999999999999999999999999999999997 6799999999999999998764
Q ss_pred -eEEEEEeeeEEeeCCCCh
Q 012779 430 -QRLSVFLTTIHRSCHTCP 447 (456)
Q Consensus 430 -rRi~~~~t~igv~Ydt~p 447 (456)
+|+.+. |+|+||+|+
T Consensus 993 ~~Rv~i~---vgV~Y~sDi 1008 (1113)
T PRK11281 993 VTRVVIK---VGVAYGSDL 1008 (1113)
T ss_pred ceEEEEE---EEeCCCCCH
Confidence 789999 999999975
No 5
>COG0668 MscS Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]
Probab=99.88 E-value=2.1e-20 Score=185.86 Aligned_cols=122 Identities=20% Similarity=0.293 Sum_probs=114.8
Q ss_pred chHHHH-HHHHHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCcEEEEC-
Q 012779 323 DREKML-ALDRISSVGLFVIGLMALAEACGVAVQSILTVGGIGGVATAFASRDVLGNVLSGLSMQFSKPFSLGDTIKVK- 400 (456)
Q Consensus 323 ~~~~i~-~i~~i~kili~ii~iiiiL~~lGi~~~sLLa~lGv~GlalgLAaqD~L~Nl~AGI~I~~~rPFrVGD~I~I~- 400 (456)
+..... .+.++.+++++++++++++..+|++++++++++|++|+++|||+|++++|+++|++++++|||++||||+++
T Consensus 79 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~~~lla~~G~~glaigla~q~~~~n~~~Gi~il~~~~f~vGD~I~i~~ 158 (316)
T COG0668 79 RETTLSVFLSNLLRILILVVALLIVLSVLGVQVTSLLAGLGALGLAIGLALQDLLSNLIAGIFLLLERPFKVGDWIEIGS 158 (316)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhHhheecCcCcCCEEEECC
Confidence 334445 789999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CceeeEE---------------EEEEeceeeeeeEEEEccCCCceEEEEEeeeEEeeCCCCh
Q 012779 401 RAYTPLK---------------MIFISFFQIGNKVCRSRDFMLKQRLSVFLTTIHRSCHTCP 447 (456)
Q Consensus 401 g~~G~Ve---------------~I~IPNs~I~~~~I~N~t~~~~rRi~~~~t~igv~Ydt~p 447 (456)
+.+|+|+ .+.+||+++.+..+.|++++..+|+.+. ++++|++|+
T Consensus 159 ~~~G~V~~i~~~~T~ir~~dg~~v~iPNs~i~~~~i~N~s~~~~~~~~~~---v~v~~~~~~ 217 (316)
T COG0668 159 GVEGTVEDIGLRSTTIRTLDGRIVTIPNSKLFTANVVNYSREPGRRVEVK---VGVAYDSDL 217 (316)
T ss_pred CceEEEEEEEEEEEEEEcCCCCEEEccchhhccCceEeCCCCCcEEEEEE---EeeccCCCH
Confidence 7999997 5699999999999999999999899999 999999985
No 6
>COG3264 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]
Probab=99.87 E-value=2.3e-20 Score=204.60 Aligned_cols=162 Identities=17% Similarity=0.264 Sum_probs=145.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchHHHHHHHHHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHH
Q 012779 286 LAQAWRGAVILSFVWFLHRWKTNVFTRAMASQSIAGLDREKMLALDRISSVGLFVIGLMALAEACGVAVQSILTVGGIGG 365 (456)
Q Consensus 286 l~~il~~~iIl~i~~~l~r~l~~~i~~~l~~~~~~~~~~~~i~~i~~i~kili~ii~iiiiL~~lGi~~~sLLa~lGv~G 365 (456)
+..++.+++++++++++.|++..+.+...-++.. .+......+.+++++++..+++++.++.+|+|.+++--..|++|
T Consensus 558 l~~ll~avl~~~~~~~l~r~~~~~L~~~vl~r~~--~~~G~r~~I~t~~~Y~~~~i~~l~~lS~~Gi~lssL~~~~gALs 635 (835)
T COG3264 558 LGALLQAVLLFLITYVLTRNLPGWLEVRVLQRLD--LDAGTRYSITTLLGYLLIAIGGLVGLSTLGIDLSSLQWLAGALS 635 (835)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc--cCcchHHHHHHHHHHHHHHHHHHHHHHHcCcChHHHHHHHHHhh
Confidence 5678889999999999999999988855544322 36667778999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcCCCCCCcEEEECCceeeEE---------------EEEEeceeeeeeEEEEccCCC-c
Q 012779 366 VATAFASRDVLGNVLSGLSMQFSKPFSLGDTIKVKRAYTPLK---------------MIFISFFQIGNKVCRSRDFML-K 429 (456)
Q Consensus 366 lalgLAaqD~L~Nl~AGI~I~~~rPFrVGD~I~I~g~~G~Ve---------------~I~IPNs~I~~~~I~N~t~~~-~ 429 (456)
+++||+.|++.+||+||++|+++|||||||||++++.+|+|. +|.+||+.+.+..+.||+..+ .
T Consensus 636 vGiGFGLQ~I~~NFVSGlIiL~ErpvkvGD~It~g~~~G~V~~I~vRAT~I~~fd~~~vIVPNs~fI~~qV~NWs~~~~~ 715 (835)
T COG3264 636 VGLGFGLQEIVSNFVSGLIILFERPVKVGDTVTIGTVSGTVRKISVRATTIRTFDRKEVIVPNSAFITEQVINWSLRDTT 715 (835)
T ss_pred hhhchhHHHHHHHhhhhhhhheecCcccCCEEEECCceEEEEEEEeeEEEEEeCCCCeEEeccHHHHhhheeeeeccCce
Confidence 999999999999999999999999999999999999999996 779999999999999999887 5
Q ss_pred eEEEEEeeeEEeeCCCChH--HHHH
Q 012779 430 QRLSVFLTTIHRSCHTCPI--REVL 452 (456)
Q Consensus 430 rRi~~~~t~igv~Ydt~p~--rev~ 452 (456)
.|+.++ ||++|+|||+ +|++
T Consensus 716 ~R~~i~---v~vay~sD~~~V~~~L 737 (835)
T COG3264 716 TRLVIP---VGVAYGSDPELVRELL 737 (835)
T ss_pred EEEEEE---ecccCCCCHHHHHHHH
Confidence 799999 9999999984 4444
No 7
>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=99.85 E-value=3.3e-21 Score=181.77 Aligned_cols=121 Identities=25% Similarity=0.438 Sum_probs=102.9
Q ss_pred HHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCcEEEECCceeeEE----
Q 012779 332 RISSVGLFVIGLMALAEACGVAVQSILTVGGIGGVATAFASRDVLGNVLSGLSMQFSKPFSLGDTIKVKRAYTPLK---- 407 (456)
Q Consensus 332 ~i~kili~ii~iiiiL~~lGi~~~sLLa~lGv~GlalgLAaqD~L~Nl~AGI~I~~~rPFrVGD~I~I~g~~G~Ve---- 407 (456)
++++++++++++++++..+|.+..++++++|++|+++|||+||+++|++||++|.++|||++||||+++|..|.|+
T Consensus 2 ~i~~~~~~~~~~~~~l~~~g~~~~~l~~~~g~~~~~i~f~~~~~~~n~~~gi~i~~~~pf~vGD~I~i~~~~G~V~~I~l 81 (206)
T PF00924_consen 2 KIIRIVIIIVGILIILSILGIDVSSLLASLGVLGLAIGFAFQDIISNFISGIIILFERPFKVGDRIEIGGVEGRVEEIGL 81 (206)
T ss_dssp -HHHHHHHHHHHHHHHHCCT--SCCHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHCC-SS-TT-EEESSS-EEEEEEE-S
T ss_pred hHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCccCCCEEEEEEeehHHHhcCc
Confidence 6789999999999999999999999999999999999999999999999999999999999999999999999997
Q ss_pred -----------EEEEeceeeeeeEEEEccC-CCceEEEEEeeeEEeeCCCCh--HHHHHhhc
Q 012779 408 -----------MIFISFFQIGNKVCRSRDF-MLKQRLSVFLTTIHRSCHTCP--IREVLNRI 455 (456)
Q Consensus 408 -----------~I~IPNs~I~~~~I~N~t~-~~~rRi~~~~t~igv~Ydt~p--~rev~~~~ 455 (456)
.+.+||+++.+..+.|+++ ++.+|..+. +.++|++++ .+++.+.+
T Consensus 82 ~~t~l~~~~g~~v~IPNs~l~~~~i~N~s~~~~~~~~~v~---~~v~~~~~~~~~~~~~~~i 140 (206)
T PF00924_consen 82 RSTRLRTWDGEIVIIPNSKLISSPIVNYSRSSPYRRVVVE---IPVDYDTDPEKIEELREKI 140 (206)
T ss_dssp SEEEEEETTS-EEEEEHHHHHCS-EEETTT-SSEEEEEEE---EEE-TTS----HHHHHHHH
T ss_pred ceeeeecCCCCEEEEEchheeeEEEEEeeccCCceeeeee---eeEecCCCchHHHHHHHHH
Confidence 5699999999999999999 777889999 999999983 66776654
No 8
>KOG4629 consensus Predicted mechanosensitive ion channel [Cell wall/membrane/envelope biogenesis]
Probab=97.95 E-value=8.5e-06 Score=90.60 Aligned_cols=120 Identities=20% Similarity=0.151 Sum_probs=100.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHhhcCCCCCCcEEEECCce
Q 012779 325 EKMLALDRISSVGLFVIGLMALAEACGVAVQSILTVGGIGGVATAFASRDVLGNVLSG-LSMQFSKPFSLGDTIKVKRAY 403 (456)
Q Consensus 325 ~~i~~i~~i~kili~ii~iiiiL~~lGi~~~sLLa~lGv~GlalgLAaqD~L~Nl~AG-I~I~~~rPFrVGD~I~I~g~~ 403 (456)
+.+.-+.+++.+++.++++++.+..+|++.+.+++..+-.-+++.+.+.+++.+++.+ ++++...||-+||+|.++|+.
T Consensus 478 taV~kL~~il~~Iv~vv~~~i~lil~~i~~~~~l~~~~sq~v~l~fif~~~~k~~~esiIFlfv~HPyDvGDRv~VDg~~ 557 (714)
T KOG4629|consen 478 TAVNKLDRILNFIVAVVLLVIWLILLGINTSKLLLVISSQLVGLAFIFGNIVKELLESIIFLFVMHPYDVGDRVVVDGVN 557 (714)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHcccceeeeeeecccceeeeeehhhHHHHHHHHHhheeecCCCCCCCeEEEeceE
Confidence 4456677778888887888888888899998888887766678889999999999984 566778899999999999988
Q ss_pred eeEE---------------EEEEeceeeeeeEEEEccCCCceEEEEEeeeEEeeCCCCh
Q 012779 404 TPLK---------------MIFISFFQIGNKVCRSRDFMLKQRLSVFLTTIHRSCHTCP 447 (456)
Q Consensus 404 G~Ve---------------~I~IPNs~I~~~~I~N~t~~~~rRi~~~~t~igv~Ydt~p 447 (456)
-.|+ .|.+||+.+....|.|+.+.+.+--.+. +.+...|++
T Consensus 558 ~vVeemnLlsTvF~~~dg~kI~~PNS~L~~k~I~N~rRS~~~~~~v~---f~i~~~T~~ 613 (714)
T KOG4629|consen 558 LVVEEMNLLSTVFLRVDGRKIFIPNSVLWTKAISNYRRSPDMGDEVE---FLISSSTPF 613 (714)
T ss_pred EEEEEeccceEEEEEECCeEEEeecHHHHhhhhhhhhcCccccccEE---EEecCCCCH
Confidence 8886 5789999999999999998877655666 888888875
No 9
>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=88.03 E-value=0.94 Score=34.22 Aligned_cols=38 Identities=16% Similarity=0.415 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 012779 282 ASQYLAQAWRGAVILSFVWFLHRWKTNVFTRAMASQSI 319 (456)
Q Consensus 282 ~~~~l~~il~~~iIl~i~~~l~r~l~~~i~~~l~~~~~ 319 (456)
+..|+|+++.+++++.++|++.+++.+++.+.+++...
T Consensus 11 ii~~lP~iv~AilIl~vG~~va~~v~~~~~~~l~~~~~ 48 (53)
T PF05552_consen 11 IIAYLPNIVGAILILIVGWWVAKFVRKLVRRLLEKRGV 48 (53)
T ss_dssp --GGHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCTS
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 35789999999999999999999999999999987654
No 10
>PRK10334 mechanosensitive channel MscS; Provisional
Probab=85.10 E-value=46 Score=33.74 Aligned_cols=59 Identities=15% Similarity=0.182 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCccccccCCcccccccchHHHHHHHHHHHHHHHHHHHH
Q 012779 197 LRDVIVPVSCYLTGTVLAWVVMPRVLRRFHKYAIQGPVSLLSGGLSIEQVPYEKSFWGALEDPVRYLITFMAF 269 (456)
Q Consensus 197 L~~~i~~ll~~ll~~ll~wlv~~~Ilrrl~~~i~~~~~~~l~~~~~kt~~~~d~~l~~~L~~Pl~l~i~li~~ 269 (456)
+..+...++.+++..+++|++.+++.+.+.+...+ ...+..+...+.+.++++++++++
T Consensus 24 ~~~~~~~i~~al~il~~~~~~~~~i~~~~~~~~~~--------------~~~~~~~~~~~~~~~~~~i~~~~~ 82 (286)
T PRK10334 24 LLSYAVNIVAALAIIIVGLIIARMISNAVNRLMIS--------------RKIDATVADFLSALVRYGIIAFTL 82 (286)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--------------cCCChHHHHHHHHHHHHHHHHHHH
Confidence 33455566666777777888886655545444432 234455555666677776665554
No 11
>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=74.05 E-value=6.5 Score=29.62 Aligned_cols=33 Identities=9% Similarity=0.112 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 012779 199 DVIVPVSCYLTGTVLAWVVMPRVLRRFHKYAIQ 231 (456)
Q Consensus 199 ~~i~~ll~~ll~~ll~wlv~~~Ilrrl~~~i~~ 231 (456)
.+++.++++++..+++|++.+.+.+-+.+.+.+
T Consensus 13 ~~lP~iv~AilIl~vG~~va~~v~~~~~~~l~~ 45 (53)
T PF05552_consen 13 AYLPNIVGAILILIVGWWVAKFVRKLVRRLLEK 45 (53)
T ss_dssp GGHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456677778888888999997776666666665
No 12
>COG0053 MMT1 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]
Probab=69.62 E-value=1.2e+02 Score=31.01 Aligned_cols=63 Identities=11% Similarity=0.078 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCcEEEEC
Q 012779 332 RISSVGLFVIGLMALAEACGVAVQSILTVGGIGGVATAFASRDVLGNVLSGLSMQFSKPFSLGDTIKVK 400 (456)
Q Consensus 332 ~i~kili~ii~iiiiL~~lGi~~~sLLa~lGv~GlalgLAaqD~L~Nl~AGI~I~~~rPFrVGD~I~I~ 400 (456)
-++.-+..+++++ ...+|....--++++.+.. +.++.-..-+-..+.-+.|+.+..-|.-++.
T Consensus 159 D~~ts~~~lvgl~--~~~~g~~~lD~i~a~~I~~----~Il~~~~~~~~~s~~~L~d~~~~~~~~~~i~ 221 (304)
T COG0053 159 DVLTSLAVLVGLL--GSLLGWPWLDPLAALLISL----YILKTGFRLFKESVNELMDAALDPEDLEKIR 221 (304)
T ss_pred HHHHHHHHHHHHH--HHHhCcHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHhCcCCCHHHHHHHH
Confidence 3444444444444 3445754433333333332 2333333334444445667666655554443
No 13
>PF12794 MscS_TM: Mechanosensitive ion channel inner membrane domain 1
Probab=67.71 E-value=1.6e+02 Score=30.60 Aligned_cols=107 Identities=15% Similarity=0.079 Sum_probs=65.9
Q ss_pred ccccchHHHHHHHHHHHHHHHHHHHHHHHHHh---hcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccc
Q 012779 244 EQVPYEKSFWGALEDPVRYLITFMAFVQIGMM---VAPTTIASQYLAQAWRGAVILSFVWFLHRWKTNVFTRAMASQSIA 320 (456)
Q Consensus 244 t~~~~d~~l~~~L~~Pl~l~i~li~~~~l~~~---~~p~~~~~~~l~~il~~~iIl~i~~~l~r~l~~~i~~~l~~~~~~ 320 (456)
.+..|.+...+.+++-.+++.+++........ ..+.....+.+.++..++..+.++++..+..+.-...+..
T Consensus 113 ~HF~w~~~~~~~~r~~l~~~~~~~~pl~~~~~~~~~~~~~~~~d~LGrl~~ii~~~~l~~~~~~l~~~~~~~~~~----- 187 (340)
T PF12794_consen 113 RHFGWPKERVQRLRRQLRWLIWVLVPLLFISIFAENLPDGLARDVLGRLAFIILLLLLAVFLWRLLRPGWGLYQP----- 187 (340)
T ss_pred ccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCchhhhhhhHHHHHHHHHHHHHHHHHHHHHccccccccC-----
Confidence 67889999999988888888776655332222 2233445567778888888888888887776653322221
Q ss_pred ccchHHHHHHHHHHHHHHHHHHH-HHHHHHhCCchHH
Q 012779 321 GLDREKMLALDRISSVGLFVIGL-MALAEACGVAVQS 356 (456)
Q Consensus 321 ~~~~~~i~~i~~i~kili~ii~i-iiiL~~lGi~~~s 356 (456)
..+.....++++...++.++-+ ++++..+|+--++
T Consensus 188 -~~~~~~~~~~~l~~~~li~~Pl~li~la~~GY~yTA 223 (340)
T PF12794_consen 188 -KPDSWIHRLRYLWWPLLILAPLALIVLALLGYYYTA 223 (340)
T ss_pred -CCcchhHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Confidence 1223445566666666655544 4444456776554
No 14
>PF12794 MscS_TM: Mechanosensitive ion channel inner membrane domain 1
Probab=61.46 E-value=2.1e+02 Score=29.75 Aligned_cols=49 Identities=12% Similarity=0.036 Sum_probs=31.1
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHh--CCchHHHHHHHHHHHHHHHH
Q 012779 322 LDREKMLALDRISSVGLFVIGLMALAEAC--GVAVQSILTVGGIGGVATAF 370 (456)
Q Consensus 322 ~~~~~i~~i~~i~kili~ii~iiiiL~~l--Gi~~~sLLa~lGv~GlalgL 370 (456)
-+++....+++..+.+++++..++....+ ..+....-.++|-+++.++.
T Consensus 117 w~~~~~~~~r~~l~~~~~~~~pl~~~~~~~~~~~~~~~~d~LGrl~~ii~~ 167 (340)
T PF12794_consen 117 WPKERVQRLRRQLRWLIWVLVPLLFISIFAENLPDGLARDVLGRLAFIILL 167 (340)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCchhhhhhhHHHHHHHHHH
Confidence 34567777888888888888777766665 34444445555555554443
No 15
>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=56.24 E-value=17 Score=28.34 Aligned_cols=28 Identities=18% Similarity=0.178 Sum_probs=20.7
Q ss_pred CCCCCcEEEEC-CceeeEEEEEEeceeeee
Q 012779 390 PFSLGDTIKVK-RAYTPLKMIFISFFQIGN 418 (456)
Q Consensus 390 PFrVGD~I~I~-g~~G~Ve~I~IPNs~I~~ 418 (456)
.-++||+|+.. |..|+|+.+. .|+.|..
T Consensus 3 ~a~vGdiIefk~g~~G~V~kv~-eNSVIVd 31 (57)
T PF09953_consen 3 KAKVGDIIEFKDGFTGIVEKVY-ENSVIVD 31 (57)
T ss_pred ccccCcEEEEcCCcEEEEEEEe-cCcEEEE
Confidence 45799999996 7999998664 5555443
No 16
>PRK11281 hypothetical protein; Provisional
Probab=52.99 E-value=5.1e+02 Score=31.64 Aligned_cols=28 Identities=7% Similarity=-0.027 Sum_probs=16.9
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 012779 323 DREKMLALDRISSVGLFVIGLMALAEAC 350 (456)
Q Consensus 323 ~~~~i~~i~~i~kili~ii~iiiiL~~l 350 (456)
.+.....+++..+.+++++..++....+
T Consensus 612 ~~~~~~~~~~~~~~~~~~~~pl~~~~~~ 639 (1113)
T PRK11281 612 PKEQVSHFRRQIVRLSLALLPLLFWSVV 639 (1113)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4456666666666666666555555444
No 17
>PRK10263 DNA translocase FtsK; Provisional
Probab=52.95 E-value=3.5e+02 Score=33.54 Aligned_cols=18 Identities=22% Similarity=0.344 Sum_probs=8.6
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 012779 359 TVGGIGGVATAFASRDVL 376 (456)
Q Consensus 359 a~lGv~GlalgLAaqD~L 376 (456)
+++|++|..++-.+...+
T Consensus 141 ~gGGIIG~lLs~lL~~Lf 158 (1355)
T PRK10263 141 ASGGVIGSLLSTTLQPLL 158 (1355)
T ss_pred cccchHHHHHHHHHHHHH
Confidence 345555555544444443
No 18
>COG4956 Integral membrane protein (PIN domain superfamily) [General function prediction only]
Probab=52.67 E-value=3e+02 Score=28.85 Aligned_cols=56 Identities=11% Similarity=0.278 Sum_probs=25.4
Q ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012779 246 VPYEKSFWGALEDPVRYLITFMAFVQIGMMVAPTTIASQYLAQAWRGAVILSFVWFLHRWKT 307 (456)
Q Consensus 246 ~~~d~~l~~~L~~Pl~l~i~li~~~~l~~~~~p~~~~~~~l~~il~~~iIl~i~~~l~r~l~ 307 (456)
.+..+.+...+.-.+.+++..+... .....|.+ ++..++.+++.++++++...+..
T Consensus 76 ~~~~~ilf~tiGLiiGLlia~l~~~--pL~~~~ip----~~~~ii~vi~t~il~y~G~~~~~ 131 (356)
T COG4956 76 LPVTTILFGTIGLIIGLLIAVLLSS--PLFLLPIP----FISTIIPVILTIILAYFGFQLAD 131 (356)
T ss_pred cCHHHHHHHHHHHHHHHHHHHHHhh--HHhhCCcc----HHHhHHHHHHHHHHHHHhhHHhh
Confidence 4444555555444444443332221 12223332 44455555555556665555543
No 19
>PF05957 DUF883: Bacterial protein of unknown function (DUF883); InterPro: IPR010279 This family consists of several bacterial proteins of unknown function that include the Escherichia coli genes for ElaB, YgaM and YqjD.
Probab=52.42 E-value=95 Score=25.87 Aligned_cols=43 Identities=16% Similarity=0.291 Sum_probs=18.4
Q ss_pred hHHHHHHHHHHHHHHhhHHHHHH---HHHHHHHHHhhchhHHHHHH
Q 012779 160 KIKDAWKSVVDGVSYTGQKAKDE---LSPQIEQLLDAHPYLRDVIV 202 (456)
Q Consensus 160 ~~~~a~~~~~~~~~~~~~~vkd~---~~~~~~ql~~~~~~L~~~i~ 202 (456)
+++...+..-+.+.+....+++. .....+++...|||..-.+.
T Consensus 35 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~V~e~P~~svgiA 80 (94)
T PF05957_consen 35 RAEEALDDARDRAEDAADQAREQAREAAEQTEDYVRENPWQSVGIA 80 (94)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHChHHHHHHH
Confidence 33333333333344444344422 23333444445777754433
No 20
>PF14801 GCD14_N: tRNA methyltransferase complex GCD14 subunit N-term; PDB: 1I9G_A.
Probab=51.08 E-value=10 Score=29.20 Aligned_cols=23 Identities=22% Similarity=0.365 Sum_probs=12.7
Q ss_pred cCCCCCCcEEEECCceeeEEEEE
Q 012779 388 SKPFSLGDTIKVKRAYTPLKMIF 410 (456)
Q Consensus 388 ~rPFrVGD~I~I~g~~G~Ve~I~ 410 (456)
..||+.||+|++-+..|.--.|+
T Consensus 3 ~Gpf~~GdrVQlTD~Kgr~~Ti~ 25 (54)
T PF14801_consen 3 RGPFRAGDRVQLTDPKGRKHTIT 25 (54)
T ss_dssp --S--TT-EEEEEETT--EEEEE
T ss_pred cCCCCCCCEEEEccCCCCeeeEE
Confidence 45999999999988888765443
No 21
>smart00739 KOW KOW (Kyprides, Ouzounis, Woese) motif. Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.
Probab=43.88 E-value=36 Score=21.40 Aligned_cols=20 Identities=25% Similarity=0.433 Sum_probs=14.4
Q ss_pred CCCCCcEEEEC-----CceeeEEEE
Q 012779 390 PFSLGDTIKVK-----RAYTPLKMI 409 (456)
Q Consensus 390 PFrVGD~I~I~-----g~~G~Ve~I 409 (456)
+|++||.|++- |..|.|.++
T Consensus 1 ~~~~G~~V~I~~G~~~g~~g~i~~i 25 (28)
T smart00739 1 KFEVGDTVRVIAGPFKGKVGKVLEV 25 (28)
T ss_pred CCCCCCEEEEeECCCCCcEEEEEEE
Confidence 57899999984 456666554
No 22
>PRK10929 putative mechanosensitive channel protein; Provisional
Probab=42.60 E-value=7.2e+02 Score=30.40 Aligned_cols=67 Identities=6% Similarity=-0.143 Sum_probs=39.4
Q ss_pred ccccchHHHHHHHHHHHHHHHHHHHHHHH---HHhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012779 244 EQVPYEKSFWGALEDPVRYLITFMAFVQI---GMMVAPTTIASQYLAQAWRGAVILSFVWFLHRWKTNVF 310 (456)
Q Consensus 244 t~~~~d~~l~~~L~~Pl~l~i~li~~~~l---~~~~~p~~~~~~~l~~il~~~iIl~i~~~l~r~l~~~i 310 (456)
.+..|.+...+.+.+-.+.+++++.-... .....+.....+.+.++..++..++++|+..++.+.-.
T Consensus 586 ~HF~w~~~~v~~~~~~~~~~~~~~~pl~~~~~~~~~~~~~~~~~~lgr~~~i~~~~~l~~~~~~~~~~~~ 655 (1109)
T PRK10929 586 AHFGWPRERVARAMRYYLLSIGLIVPLIMALITFDNLNDREFSGTLGRLCFILLCGALSLVTLSLKRAGI 655 (1109)
T ss_pred HhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCchhhhhccHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 66888888888777666654443322111 11223333445566777777777777777776665543
No 23
>PRK11465 putative mechanosensitive channel protein; Provisional
Probab=40.67 E-value=6.5e+02 Score=29.34 Aligned_cols=142 Identities=7% Similarity=-0.005 Sum_probs=76.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccc-ch----HHHHHHHHHHHHHH-HHHHHHHHHHHhCCchHHHHHHHH
Q 012779 289 AWRGAVILSFVWFLHRWKTNVFTRAMASQSIAGL-DR----EKMLALDRISSVGL-FVIGLMALAEACGVAVQSILTVGG 362 (456)
Q Consensus 289 il~~~iIl~i~~~l~r~l~~~i~~~l~~~~~~~~-~~----~~i~~i~~i~kili-~ii~iiiiL~~lGi~~~sLLa~lG 362 (456)
.+..+.-+.+.+++.-+.-.+...+.+++..... .+ ...+.+..+++-++ +++.++.++..++.=-.. ++++-
T Consensus 463 ~i~~l~~i~iil~i~~v~w~l~~~~ie~~l~~~~~~~~~~~~r~~Tl~~ll~~~~~~~i~~i~~l~vL~~lGi~-it~Ll 541 (741)
T PRK11465 463 TVDILIRIALILFFSAVGWTVLASLIENRLASDIHGRPLPSARTRTLLTLFRNALAVIISTITIMIVLSEIGVN-IAPLL 541 (741)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCc-HHHHH
Confidence 3344444444444444444444544444433221 11 22233333433333 333444444444432223 34454
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCcEEEECCceeeEEEEEEeceeeeeeEEEEccCCCceEEEEE
Q 012779 363 IGGVATAFASRDVLGNVLSGLSMQFSKPFSLGDTIKVKRAYTPLKMIFISFFQIGNKVCRSRDFMLKQRLSVF 435 (456)
Q Consensus 363 v~GlalgLAaqD~L~Nl~AGI~I~~~rPFrVGD~I~I~g~~G~Ve~I~IPNs~I~~~~I~N~t~~~~rRi~~~ 435 (456)
+++-++|+|.-=-.+++++-+ +..=.+-.-|-.++||. =++.++++.+++|..+.++.++++++. +.++
T Consensus 542 A~aGi~GlaiGfaaQ~~l~N~--isGi~Il~e~pf~vGD~-I~v~g~~GtVe~I~lRsT~iRt~dg~~-i~IP 610 (741)
T PRK11465 542 AGAGALGLAISFGSQTLVKDI--ITGVFIQFENGMNTGDL-VTIGPLTGTVERMSIRSVGVRQDTGAY-HIIP 610 (741)
T ss_pred HHHHHHHHHHHHHHHHHHHHH--HHHHHHHHcCCcCCCCE-EEECCeEEEEEEEeeeEEEEEcCCCCE-EEEE
Confidence 555566888888888888875 33334555555666552 223467899999999999999998764 4444
No 24
>PRK13692 (3R)-hydroxyacyl-ACP dehydratase subunit HadA; Provisional
Probab=38.23 E-value=1.9e+02 Score=26.66 Aligned_cols=61 Identities=15% Similarity=0.013 Sum_probs=34.7
Q ss_pred HHHhhcCCCCCCcEEEECCceeeEEEEEE-eceeeeeeEEEEccCCCceEEEEEeeeEEeeCCCC
Q 012779 383 LSMQFSKPFSLGDTIKVKRAYTPLKMIFI-SFFQIGNKVCRSRDFMLKQRLSVFLTTIHRSCHTC 446 (456)
Q Consensus 383 I~I~~~rPFrVGD~I~I~g~~G~Ve~I~I-PNs~I~~~~I~N~t~~~~rRi~~~~t~igv~Ydt~ 446 (456)
-.+-+-+|+++||.|.... +|.++.- ++..+....++.++.+++.-+....+-+.-.++.+
T Consensus 89 q~~~f~~PV~~GDtL~~~~---eV~~~~~~~~~giv~~~~~v~Nq~Ge~V~~~~~~~~~r~~~~~ 150 (159)
T PRK13692 89 QVLKFEKPIVAGDKLYCDV---YVDSVREAHGTQIIVTKNIVTNEEGDVVQETYTTLAGRAGEDG 150 (159)
T ss_pred eEEEEeCCccCCCEEEEEE---EEEEEEEcCCceEEEEEEEEEcCCCCEEEEEEEEEEEecCCcC
Confidence 3467889999999998543 3433321 13344444555555455544555544455556654
No 25
>PF14348 DUF4400: Domain of unknown function (DUF4400)
Probab=37.38 E-value=3.6e+02 Score=25.48 Aligned_cols=77 Identities=9% Similarity=-0.056 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhhccccccchHHHHHHHHHHHHHHHHHHHHHHHHH-h--CCchHHHHHHHHHHHHHHHHHH
Q 012779 296 LSFVWFLHRWKTNVFTRAMASQSIAGLDREKMLALDRISSVGLFVIGLMALAEA-C--GVAVQSILTVGGIGGVATAFAS 372 (456)
Q Consensus 296 l~i~~~l~r~l~~~i~~~l~~~~~~~~~~~~i~~i~~i~kili~ii~iiiiL~~-l--Gi~~~sLLa~lGv~GlalgLAa 372 (456)
+.+...+.-+.+.+++|-+++...........+...+.++.+++.. .++.. + -+++..+. + ...+.+|++.
T Consensus 117 ~~~~~~~~~~vDGl~~R~iRr~~~g~eSp~~~h~a~~~~~~~~~~~---~~lyL~lP~~i~P~~~~--l-~~a~llg~av 190 (198)
T PF14348_consen 117 LFLLFALAALVDGLVRRDIRRFGFGRESPFVYHHAKRSVIPLLILP---WVLYLSLPFSIPPNLVP--L-PAALLLGLAV 190 (198)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHH---HHHHHHcccccChHHHH--H-HHHHHHHHHH
Confidence 3333444555666666666655432222333333333333333333 12222 3 44444333 2 4445555555
Q ss_pred HHHHHH
Q 012779 373 RDVLGN 378 (456)
Q Consensus 373 qD~L~N 378 (456)
.-+.+|
T Consensus 191 ~~t~s~ 196 (198)
T PF14348_consen 191 WITASN 196 (198)
T ss_pred HHHHHh
Confidence 555554
No 26
>PRK10404 hypothetical protein; Provisional
Probab=35.21 E-value=2.3e+02 Score=24.41 Aligned_cols=15 Identities=7% Similarity=0.184 Sum_probs=7.6
Q ss_pred HHHHhhchhHHHHHH
Q 012779 188 EQLLDAHPYLRDVIV 202 (456)
Q Consensus 188 ~ql~~~~~~L~~~i~ 202 (456)
+++.-.|||-.--+.
T Consensus 73 d~yV~e~Pw~avGia 87 (101)
T PRK10404 73 DDYVHEKPWQGIGVG 87 (101)
T ss_pred HHHHHhCcHHHHHHH
Confidence 333334787744443
No 27
>PF12961 DUF3850: Domain of Unknown Function with PDB structure (DUF3850)
Probab=31.75 E-value=65 Score=26.36 Aligned_cols=13 Identities=23% Similarity=0.713 Sum_probs=11.7
Q ss_pred cCCCCCCcEEEEC
Q 012779 388 SKPFSLGDTIKVK 400 (456)
Q Consensus 388 ~rPFrVGD~I~I~ 400 (456)
||.|++||.+.+.
T Consensus 26 DRdf~VGD~L~L~ 38 (72)
T PF12961_consen 26 DRDFQVGDILVLR 38 (72)
T ss_pred CCCCCCCCEEEEE
Confidence 7899999999985
No 28
>PF13726 Na_H_antiport_2: Na+-H+ antiporter family
Probab=31.28 E-value=87 Score=26.60 Aligned_cols=46 Identities=15% Similarity=0.348 Sum_probs=34.3
Q ss_pred HHHHHHHHHHHHhCCch-HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012779 338 LFVIGLMALAEACGVAV-QSILTVGGIGGVATAFASRDVLGNVLSGL 383 (456)
Q Consensus 338 i~ii~iiiiL~~lGi~~-~sLLa~lGv~GlalgLAaqD~L~Nl~AGI 383 (456)
++.+.++.++..+.+++ .+++.++-++|++=|+...++++-+..|+
T Consensus 4 viaV~vm~~L~LlR~nVvlalliaalvgGl~~Gl~l~~t~~~~~~Gm 50 (88)
T PF13726_consen 4 VIAVLVMIVLSLLRVNVVLALLIAALVGGLVGGLGLGETMSAFIDGM 50 (88)
T ss_pred hHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhcCCCHHHHHHHHHHHh
Confidence 34455566777777776 56777777888888888888888888886
No 29
>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=29.32 E-value=81 Score=21.17 Aligned_cols=19 Identities=37% Similarity=0.368 Sum_probs=15.3
Q ss_pred CCcEEEE-----CCceeeEEEEEE
Q 012779 393 LGDTIKV-----KRAYTPLKMIFI 411 (456)
Q Consensus 393 VGD~I~I-----~g~~G~Ve~I~I 411 (456)
+||+|.+ .|..|.|.+|.-
T Consensus 1 ~Gd~V~V~~G~~~G~~G~I~~i~~ 24 (32)
T PF00467_consen 1 VGDTVKVISGPFKGKIGKIVEIDR 24 (32)
T ss_dssp TTSEEEESSSTTTTEEEEEEEEET
T ss_pred CCCEEEEeEcCCCCceEEEEEEEC
Confidence 5999999 478999987753
No 30
>COG4873 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=28.60 E-value=73 Score=25.78 Aligned_cols=37 Identities=8% Similarity=0.027 Sum_probs=23.2
Q ss_pred CCCCCCcEEEE-CCceeeEEEEEEeceeeeeeEEEEcc
Q 012779 389 KPFSLGDTIKV-KRAYTPLKMIFISFFQIGNKVCRSRD 425 (456)
Q Consensus 389 rPFrVGD~I~I-~g~~G~Ve~I~IPNs~I~~~~I~N~t 425 (456)
.--++||.|+. +|..|.||.++=.-.-+..+...|+.
T Consensus 22 ~~a~vgniief~dgl~g~vek~nensvivdlt~menf~ 59 (81)
T COG4873 22 KIAKVGNIIEFKDGLTGVVEKVNENSVIVDLTIMENFR 59 (81)
T ss_pred eeeeccceEEEcccceeeeeeecCCcEEEEEEeecccc
Confidence 34679999998 57999999764322222333444444
No 31
>PRK10132 hypothetical protein; Provisional
Probab=25.48 E-value=4.3e+02 Score=23.11 Aligned_cols=18 Identities=6% Similarity=0.091 Sum_probs=8.9
Q ss_pred HHHhhchhHHHHHHHHHH
Q 012779 189 QLLDAHPYLRDVIVPVSC 206 (456)
Q Consensus 189 ql~~~~~~L~~~i~~ll~ 206 (456)
++.-.|||..--+...++
T Consensus 80 ~~V~~~Pw~svgiaagvG 97 (108)
T PRK10132 80 TFVRERPWCSVGTAAAVG 97 (108)
T ss_pred HHHHhCcHHHHHHHHHHH
Confidence 333347777554443333
No 32
>TIGR02266 gmx_TIGR02266 Myxococcus xanthus paralogous domain TIGR02266. This domain is related to Type IV pilus assembly protein PilZ (Pfam model pfam07238). It is found in at least 12 copies in Myxococcus xanthus DK 1622.
Probab=25.15 E-value=1.4e+02 Score=24.24 Aligned_cols=24 Identities=25% Similarity=0.486 Sum_probs=18.6
Q ss_pred HHHH-HHHHHHhhcCCCCCCcEEEE
Q 012779 376 LGNV-LSGLSMQFSKPFSLGDTIKV 399 (456)
Q Consensus 376 L~Nl-~AGI~I~~~rPFrVGD~I~I 399 (456)
+.|+ -+|+.+..++|+.+||.+.+
T Consensus 21 ~~diS~gG~~~~~~~~~~~g~~v~l 45 (96)
T TIGR02266 21 SINLSKGGLFIRTRKPLAVGTRVEL 45 (96)
T ss_pred hhhcCCceEEEecCCCcCCCCEEEE
Confidence 3443 36788889999999998875
No 33
>PF11188 DUF2975: Protein of unknown function (DUF2975); InterPro: IPR021354 This family of proteins have no known function. Some members are annotated as membrane proteins however this cannot be confirmed.
Probab=24.23 E-value=4.5e+02 Score=22.45 Aligned_cols=25 Identities=12% Similarity=0.094 Sum_probs=15.5
Q ss_pred cccchHHHHHHHHHHHHHHHHHHHH
Q 012779 245 QVPYEKSFWGALEDPVRYLITFMAF 269 (456)
Q Consensus 245 ~~~~d~~l~~~L~~Pl~l~i~li~~ 269 (456)
+..+...-.+.+++....++....+
T Consensus 53 ~~~Fs~~n~~~l~~ig~~~l~~~~~ 77 (136)
T PF11188_consen 53 GKPFSPENIRRLRRIGWLLLIISIL 77 (136)
T ss_pred CCcchHHHHHHHHHHHHHHHHHHHH
Confidence 3667777777777766665544433
No 34
>COG0382 UbiA 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]
Probab=23.34 E-value=7.5e+02 Score=24.66 Aligned_cols=14 Identities=21% Similarity=0.496 Sum_probs=8.3
Q ss_pred HHHHHHHHHHHHHH
Q 012779 256 LEDPVRYLITFMAF 269 (456)
Q Consensus 256 L~~Pl~l~i~li~~ 269 (456)
+++|...+..+...
T Consensus 19 ~~r~i~~l~~~~~~ 32 (289)
T COG0382 19 LDRPIFNLLLLLPA 32 (289)
T ss_pred HhhHHHHHHHHHHH
Confidence 56666666555544
No 35
>PF05957 DUF883: Bacterial protein of unknown function (DUF883); InterPro: IPR010279 This family consists of several bacterial proteins of unknown function that include the Escherichia coli genes for ElaB, YgaM and YqjD.
Probab=22.99 E-value=4.4e+02 Score=21.81 Aligned_cols=12 Identities=17% Similarity=0.210 Sum_probs=4.7
Q ss_pred HHHHHHHHHHHH
Q 012779 206 CYLTGTVLAWVV 217 (456)
Q Consensus 206 ~~ll~~ll~wlv 217 (456)
.+.++.++++++
T Consensus 80 AagvG~llG~Ll 91 (94)
T PF05957_consen 80 AAGVGFLLGLLL 91 (94)
T ss_pred HHHHHHHHHHHH
Confidence 333334444443
No 36
>COG1030 NfeD Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]
Probab=22.92 E-value=5.5e+02 Score=27.99 Aligned_cols=25 Identities=16% Similarity=0.284 Sum_probs=18.0
Q ss_pred ccccchHHHHHHHHHHHHHHHHHHH
Q 012779 244 EQVPYEKSFWGALEDPVRYLITFMA 268 (456)
Q Consensus 244 t~~~~d~~l~~~L~~Pl~l~i~li~ 268 (456)
-+-+|.+.+.+.+..|..-.+.+..
T Consensus 219 ~~ps~~~~ll~~ItdP~va~ILl~L 243 (436)
T COG1030 219 LEPSWRERLLNWITDPSVALILLLL 243 (436)
T ss_pred cCccHHHHHHHHhcCcHHHHHHHHH
Confidence 4556888999999988776555433
No 37
>PF11449 DUF2899: Protein of unknown function (DUF2899); InterPro: IPR021552 This is a bacterial family of uncharacterised proteins.
Probab=22.92 E-value=5.7e+02 Score=26.43 Aligned_cols=44 Identities=18% Similarity=0.086 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH----hCCchHHHHHHHHHHHHHH
Q 012779 325 EKMLALDRISSVGLFVIGLMALAEA----CGVAVQSILTVGGIGGVAT 368 (456)
Q Consensus 325 ~~i~~i~~i~kili~ii~iiiiL~~----lGi~~~sLLa~lGv~Glal 368 (456)
...+.+....++.+|++.+..+++. .|.+...++..-++.+-.+
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 3567888899999999988877775 3888777777666554443
No 38
>COG4575 ElaB Uncharacterized conserved protein [Function unknown]
Probab=22.72 E-value=4.8e+02 Score=22.91 Aligned_cols=26 Identities=12% Similarity=0.220 Sum_probs=14.3
Q ss_pred HHHHHHhhchhHHHHHHHHHHHHHHH
Q 012779 186 QIEQLLDAHPYLRDVIVPVSCYLTGT 211 (456)
Q Consensus 186 ~~~ql~~~~~~L~~~i~~ll~~ll~~ 211 (456)
--+.+...|||-.--+...++++++.
T Consensus 74 ~tD~yV~e~PWq~VGvaAaVGlllGl 99 (104)
T COG4575 74 ATDDYVRENPWQGVGVAAAVGLLLGL 99 (104)
T ss_pred HHHHHHHcCCchHHHHHHHHHHHHHH
Confidence 33455555888765555555544443
No 39
>PRK13892 conjugal transfer protein TrbC; Provisional
Probab=22.25 E-value=3.8e+02 Score=24.51 Aligned_cols=66 Identities=11% Similarity=0.239 Sum_probs=42.6
Q ss_pred ccccchH---HHHHHHHHHHHHHHHHHHHHHHHHhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012779 244 EQVPYEK---SFWGALEDPVRYLITFMAFVQIGMMVAPTTIASQYLAQAWRGAVILSFVWFLHRWKTNV 309 (456)
Q Consensus 244 t~~~~d~---~l~~~L~~Pl~l~i~li~~~~l~~~~~p~~~~~~~l~~il~~~iIl~i~~~l~r~l~~~ 309 (456)
+.-||+. .+.+++..|+...+.++++...+..+.-......+..+++.+++.+.+......+...+
T Consensus 42 ~glPWE~pL~~I~~SitGPVA~~isvI~Iv~aG~~LaFGge~~gf~R~li~vVl~lsi~~~A~n~~~~f 110 (134)
T PRK13892 42 GSLPYESWLTNLRNSVTGPVAFALSIIGIVVAGGILIFGGELNGFFRTLIFIVLVMALLVGAQNMMSTF 110 (134)
T ss_pred CCCCchhHHHHHHHHhhchHHHHHHHHHHHHhChHhhcCccccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566664 56777999999998888886544432211112355567777777777777766666554
No 40
>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=22.16 E-value=93 Score=23.73 Aligned_cols=12 Identities=25% Similarity=0.672 Sum_probs=9.5
Q ss_pred CCCCCCcEEEEC
Q 012779 389 KPFSLGDTIKVK 400 (456)
Q Consensus 389 rPFrVGD~I~I~ 400 (456)
.+.-+||||.++
T Consensus 36 ~~~~VGD~V~~~ 47 (68)
T cd04466 36 NPPAVGDRVEFE 47 (68)
T ss_pred CCCCCCcEEEEE
Confidence 456899999874
No 41
>PF03908 Sec20: Sec20; InterPro: IPR005606 Sec20 is a membrane glycoprotein associated with secretory pathway.
Probab=20.59 E-value=4.4e+02 Score=21.83 Aligned_cols=25 Identities=8% Similarity=0.155 Sum_probs=17.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
Q 012779 196 YLRDVIVPVSCYLTGTVLAWVVMPR 220 (456)
Q Consensus 196 ~L~~~i~~ll~~ll~~ll~wlv~~~ 220 (456)
+...+++..++.++.++++|+++++
T Consensus 67 ~~D~~li~~~~~~f~~~v~yI~~rR 91 (92)
T PF03908_consen 67 KTDRILIFFAFLFFLLVVLYILWRR 91 (92)
T ss_pred HHhHHHHHHHHHHHHHHHHHHhhhc
Confidence 3345666777777778888887754
No 42
>PRK05585 yajC preprotein translocase subunit YajC; Validated
Probab=20.26 E-value=1e+02 Score=26.90 Aligned_cols=20 Identities=10% Similarity=0.154 Sum_probs=16.5
Q ss_pred CCCCcEEEE-CCceeeEEEEE
Q 012779 391 FSLGDTIKV-KRAYTPLKMIF 410 (456)
Q Consensus 391 FrVGD~I~I-~g~~G~Ve~I~ 410 (456)
.++||+|.. +|..|+|.+|.
T Consensus 53 Lk~Gd~VvT~gGi~G~Vv~i~ 73 (106)
T PRK05585 53 LAKGDEVVTNGGIIGKVTKVS 73 (106)
T ss_pred cCCCCEEEECCCeEEEEEEEe
Confidence 689999955 68999998764
Done!