Query 024078
Match_columns 273
No_of_seqs 40 out of 42
Neff 2.7
Searched_HMMs 46136
Date Fri Mar 29 08:47:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024078.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024078hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03703 bPH_2: Bacterial PH d 98.7 1.4E-08 3.1E-13 72.5 4.5 77 100-186 3-79 (80)
2 COG3402 Uncharacterized conser 98.3 2.9E-06 6.3E-11 74.1 8.2 88 84-191 65-154 (161)
3 COG3428 Predicted membrane pro 97.6 4.3E-05 9.4E-10 76.1 3.6 81 65-166 44-124 (494)
4 COG3428 Predicted membrane pro 97.1 0.0022 4.9E-08 64.2 8.5 109 67-197 236-345 (494)
5 PF06305 DUF1049: Protein of u 47.5 19 0.00041 25.7 2.5 35 66-100 17-52 (68)
6 PF04281 Tom22: Mitochondrial 44.7 44 0.00094 28.9 4.7 34 61-94 76-113 (137)
7 COG2332 CcmE Cytochrome c-type 43.5 68 0.0015 28.6 5.7 90 66-185 10-99 (153)
8 PRK01844 hypothetical protein; 37.8 51 0.0011 26.1 3.7 32 63-99 3-34 (72)
9 TIGR02841 spore_YyaC putative 35.7 14 0.0003 32.3 0.3 53 143-195 68-127 (140)
10 PRK07353 F0F1 ATP synthase sub 35.1 67 0.0015 25.9 4.2 29 66-96 9-37 (140)
11 PF06866 DUF1256: Protein of u 33.9 11 0.00023 33.5 -0.7 52 143-195 92-151 (163)
12 PF14812 PBP1_TM: Transmembran 31.2 5 0.00011 32.1 -2.8 13 64-76 67-79 (81)
13 CHL00118 atpG ATP synthase CF0 30.1 90 0.0019 26.2 4.3 37 57-96 17-54 (156)
14 PRK00523 hypothetical protein; 29.6 86 0.0019 24.8 3.8 32 63-99 4-35 (72)
15 PF02893 GRAM: GRAM domain; I 29.4 82 0.0018 22.4 3.4 42 96-143 27-68 (69)
16 PRK14472 F0F1 ATP synthase sub 28.1 1.2E+02 0.0025 25.9 4.6 47 42-96 4-50 (175)
17 PF15050 SCIMP: SCIMP protein 27.8 77 0.0017 27.7 3.5 29 66-100 9-37 (133)
18 PF14470 bPH_3: Bacterial PH d 25.5 90 0.0019 22.9 3.1 68 100-186 23-90 (96)
19 smart00568 GRAM domain in gluc 24.5 73 0.0016 22.1 2.4 40 95-140 18-57 (61)
20 KOG0629 Glutamate decarboxylas 24.2 31 0.00068 35.5 0.6 94 176-269 233-346 (510)
21 PF05569 Peptidase_M56: BlaR1 22.8 1.9E+02 0.0041 26.1 5.2 18 179-196 192-209 (299)
22 PF08512 Rtt106: Histone chape 22.5 2.7E+02 0.0059 21.8 5.4 64 99-178 11-74 (95)
23 PF12955 DUF3844: Domain of un 22.0 1.2E+02 0.0026 25.3 3.5 41 43-83 50-90 (103)
24 PF06713 bPH_4: Bacterial PH d 21.2 2.9E+02 0.0064 20.6 5.2 69 112-189 3-72 (74)
25 PF11014 DUF2852: Protein of u 20.3 1.3E+02 0.0028 25.7 3.4 24 67-90 13-36 (115)
26 COG2187 Uncharacterized protei 20.2 51 0.0011 32.5 1.2 27 104-131 33-59 (337)
No 1
>PF03703 bPH_2: Bacterial PH domain; InterPro: IPR005182 A domain that is found in uncharacterised family of membrane proteins. 1-3 copies found in each protein, with each copy flanked by transmembrane helices.
Probab=98.73 E-value=1.4e-08 Score=72.47 Aligned_cols=77 Identities=16% Similarity=0.289 Sum_probs=61.4
Q ss_pred cceeEEecCceEEeecCCccccccccccccceecCcchheeeeehhhhhhhhceeEEEEEeeecCCCCCCCceeEeeccC
Q 024078 100 SRKLYVTPSEIVYKVSRPSFIPFWGKTTNERHVPLSLVIDVIIEQGCLQSIYGIHTFRVESIARGKAAPVDELQVQGVDN 179 (273)
Q Consensus 100 srkL~vT~~~ivYKvsRp~~fp~~Gv~r~Ek~VPL~~ItDviieQG~LqslfGl~~lrvEtaGqs~~~~~d~vql~GV~n 179 (273)
+.+..+|++.++. .+|.+. +++..+|+++|.+|-+.|||+|+.||+.++.|+++|.++.. -.+...++.+
T Consensus 3 ~~~y~i~~~~l~i--~~G~~~------~~~~~i~~~~Iq~v~~~q~~~~r~~g~~~i~i~~~~~~~~~--~~i~~~~~~~ 72 (80)
T PF03703_consen 3 NTGYTITDDRLII--RSGLFS------KRTTIIPLDRIQSVSIKQNPLQRLFGLGTIKIDTAGGSGEK--IEIPFLSIED 72 (80)
T ss_pred EEEEEEECCEEEE--EECeEE------EEEEEEEhhHeEEEEEEcCHHHHhCccEEEEEEECCCCCce--eEEecCCHHH
Confidence 3446677666553 236664 99999999999999999999999999999999999988754 3677777777
Q ss_pred hhhHHHH
Q 024078 180 PVLLRKV 186 (273)
Q Consensus 180 p~~FRk~ 186 (273)
|.++++.
T Consensus 73 a~~i~~~ 79 (80)
T PF03703_consen 73 AEEIYDW 79 (80)
T ss_pred HHHHHhh
Confidence 7777654
No 2
>COG3402 Uncharacterized conserved protein [Function unknown]
Probab=98.29 E-value=2.9e-06 Score=74.12 Aligned_cols=88 Identities=20% Similarity=0.337 Sum_probs=71.1
Q ss_pred HHHhh--hhhhhhhhccccceeEEecCceEEeecCCccccccccccccceecCcchheeeeehhhhhhhhceeEEEEEee
Q 024078 84 LLYLP--IRRYVLKKDISSRKLYVTPSEIVYKVSRPSFIPFWGKTTNERHVPLSLVIDVIIEQGCLQSIYGIHTFRVESI 161 (273)
Q Consensus 84 LLylP--i~ryv~rkdi~srkL~vT~~~ivYKvsRp~~fp~~Gv~r~Ek~VPL~~ItDviieQG~LqslfGl~~lrvEta 161 (273)
|...| +|+-+.|-+++...+++++| ++| ++++.+|--.|.-|=.+||||+|.|||-++++=||
T Consensus 65 l~iiP~~~Ryr~wry~v~~~el~iq~G---------iLv------~~r~viP~~RVQhVDt~~GPL~R~~~La~vti~TA 129 (161)
T COG3402 65 LFIIPQLVRYRVWRYEVEEDELDIQHG---------ILV------RTRTVIPYVRVQHVDTEQGPLLRRYGLATVTITTA 129 (161)
T ss_pred hhhhhHHHhhhhheeecccceEEeecc---------EEE------EEEEEeeEEEEEeeecccChHHHHhCcceEEEEec
Confidence 34568 56667888999999999955 443 99999999999999999999999999999999999
Q ss_pred ecCCCCCCCceeEeeccChhhHHHHHHHHH
Q 024078 162 ARGKAAPVDELQVQGVDNPVLLRKVIVTEA 191 (273)
Q Consensus 162 Gqs~~~~~d~vql~GV~np~~FRk~Il~q~ 191 (273)
|. . ..++..-...++.+|..+...+
T Consensus 130 ss-~----~~IeaL~~~eAdrlr~~l~~la 154 (161)
T COG3402 130 SS-D----HTIEALDREEADRLRERLANLA 154 (161)
T ss_pred cc-c----ceecccCHHHHHHHHHHHHHHH
Confidence 85 1 2455555567888888776554
No 3
>COG3428 Predicted membrane protein [Function unknown]
Probab=97.61 E-value=4.3e-05 Score=76.06 Aligned_cols=81 Identities=15% Similarity=0.390 Sum_probs=63.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhccccceeEEecCceEEeecCCccccccccccccceecCcchheeeeeh
Q 024078 65 IWFSISLLLVLAWGVGVFMLLYLPIRRYVLKKDISSRKLYVTPSEIVYKVSRPSFIPFWGKTTNERHVPLSLVIDVIIEQ 144 (273)
Q Consensus 65 ~W~lislllvLaWgVGilmLLylPi~ryv~rkdi~srkL~vT~~~ivYKvsRp~~fp~~Gv~r~Ek~VPL~~ItDviieQ 144 (273)
.|..+.+..+++|+|.- .+-|. -.+=-|.+..++++ +|+++ |+++.+|.+.|.-|=..|
T Consensus 44 ~w~~~~~vv~vi~~i~~-ii~w~-----~~~Yried~~~~l~---------~Gi~~------rk~r~i~~~RIQsVd~t~ 102 (494)
T COG3428 44 FWGGAALVVLVIFLILQ-IIKWI-----TFTYRIEDEEVRLQ---------TGIFS------RKKRYIPIDRIQSVDTTA 102 (494)
T ss_pred eeeeehhhHHHHHHHHh-hhEEE-----EEEEEEecceEEEE---------eeEEe------ecceecchHhhhhhHHHH
Confidence 48888888889998876 22221 12224555566665 77775 999999999999999999
Q ss_pred hhhhhhhceeEEEEEeeecCCC
Q 024078 145 GCLQSIYGIHTFRVESIARGKA 166 (273)
Q Consensus 145 G~LqslfGl~~lrvEtaGqs~~ 166 (273)
|-++|+||+..++|||||-++-
T Consensus 103 ~lv~rlfgl~~l~IeTaGg~~e 124 (494)
T COG3428 103 GLVARLFGLVVLRIETAGGGGE 124 (494)
T ss_pred HHHHHhhccEEEEEEcCCCCCc
Confidence 9999999999999999996543
No 4
>COG3428 Predicted membrane protein [Function unknown]
Probab=97.07 E-value=0.0022 Score=64.18 Aligned_cols=109 Identities=15% Similarity=0.244 Sum_probs=75.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhhhhhhccccceeEEecCceEEeecCCccccccccccccceecCcchheeeeehhh
Q 024078 67 FSISLLLVLAWGVGVFMLLYLPIRRYVLKKDISSRKLYVTPSEIVYKVSRPSFIPFWGKTTNERHVPLSLVIDVIIEQGC 146 (273)
Q Consensus 67 ~lislllvLaWgVGilmLLylPi~ryv~rkdi~srkL~vT~~~ivYKvsRp~~fp~~Gv~r~Ek~VPL~~ItDviieQG~ 146 (273)
+++-++++.+|++++...+ ++-|..|.--.++.|. ++||.+ -|.+-|+||.+|+-|.++|-+
T Consensus 236 v~~vl~llvaW~~s~~~tm---~rf~~fq~~~~~~~L~---------ierGLl------err~~Tipl~RlqaV~l~esl 297 (494)
T COG3428 236 VLAVLLLLVAWLLSIALTM---FRFYGFQVMKENGVLH---------IERGLL------ERRKVTIPLRRLQAVTLRESL 297 (494)
T ss_pred HHHHHHHHHHHHHHHHHHh---hhhhceEEEecCCEEE---------EEeeee------ecccceeehhheEEEEeechH
Confidence 5666778889999995544 2233333222244444 447766 599999999999999999999
Q ss_pred hhhhhceeEEEEEeeecCCCC-CCCceeEeeccChhhHHHHHHHHHHHhhhc
Q 024078 147 LQSIYGIHTFRVESIARGKAA-PVDELQVQGVDNPVLLRKVIVTEAAKVIQN 197 (273)
Q Consensus 147 LqslfGl~~lrvEtaGqs~~~-~~d~vql~GV~np~~FRk~Il~q~s~l~~~ 197 (273)
|+|+||.-++.|||+|..|.. .+... ..=|-.=|+++++-..++-++
T Consensus 298 lrrl~G~~~v~v~~aG~~gd~~~sgs~----~llP~~~k~~v~~~L~~~~P~ 345 (494)
T COG3428 298 LRRLFGYAAVDVVTAGVHGDSQSSGST----PLLPFIKKEAVLKLLRENTPD 345 (494)
T ss_pred HHHhhccEEEEEEEecCCCCCcCCCce----eccccccHHHHHHHHHHhCCc
Confidence 999999999999999933321 12222 233555677888777776643
No 5
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=47.48 E-value=19 Score=25.75 Aligned_cols=35 Identities=23% Similarity=0.345 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHHHH-HHHHHhhhhhhhhhhcccc
Q 024078 66 WFSISLLLVLAWGVGV-FMLLYLPIRRYVLKKDISS 100 (273)
Q Consensus 66 W~lislllvLaWgVGi-lmLLylPi~ryv~rkdi~s 100 (273)
|+-.+++++++-++|+ ++.++.-..++-.|+.+++
T Consensus 17 ~~pl~l~il~~f~~G~llg~l~~~~~~~~~r~~~~~ 52 (68)
T PF06305_consen 17 PLPLGLLILIAFLLGALLGWLLSLPSRLRLRRRIRR 52 (68)
T ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3556667777777777 5556555555656665544
No 6
>PF04281 Tom22: Mitochondrial import receptor subunit Tom22 ; InterPro: IPR005683 The mitochondrial protein translocase family, which is responsible for movement of nuclear encoded pre-proteins into mitochondria, is very complex with at least 19 components. These proteins include several chaperone proteins, four proteins of the outer membrane translocase (Tom) import receptor, five proteins of the Tom channel complex, five proteins of the inner membrane translocase (Tim) and three "motor" proteins. This family represents the Tom22 proteins []. The N-terminal region of Tom22 has been shown to have chaperone-like activity, and the C-terminal region faces the intermembrane face []. ; GO: 0006886 intracellular protein transport, 0005741 mitochondrial outer membrane
Probab=44.66 E-value=44 Score=28.88 Aligned_cols=34 Identities=24% Similarity=0.179 Sum_probs=23.1
Q ss_pred hhhHHHHHHHHHHH---HHHHHHH-HHHHHhhhhhhhh
Q 024078 61 YDTIIWFSISLLLV---LAWGVGV-FMLLYLPIRRYVL 94 (273)
Q Consensus 61 y~t~~W~lislllv---LaWgVGi-lmLLylPi~ryv~ 94 (273)
+.++-|..-+++-+ .+|+++- .|||.+|+..-+.
T Consensus 76 ~~~~~~~~k~~~~~~g~a~Wi~tTSallLgvPl~l~ie 113 (137)
T PF04281_consen 76 VSTTSSAVKSLFSFSGKALWIVTTSALLLGVPLALEIE 113 (137)
T ss_pred HHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHH
Confidence 34444544444443 7999999 8999999977554
No 7
>COG2332 CcmE Cytochrome c-type biogenesis protein CcmE [Posttranslational modification, protein turnover, chaperones]
Probab=43.51 E-value=68 Score=28.59 Aligned_cols=90 Identities=26% Similarity=0.430 Sum_probs=58.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhccccceeEEecCceEEeecCCccccccccccccceecCcchheeeeehh
Q 024078 66 WFSISLLLVLAWGVGVFMLLYLPIRRYVLKKDISSRKLYVTPSEIVYKVSRPSFIPFWGKTTNERHVPLSLVIDVIIEQG 145 (273)
Q Consensus 66 W~lislllvLaWgVGilmLLylPi~ryv~rkdi~srkL~vT~~~ivYKvsRp~~fp~~Gv~r~Ek~VPL~~ItDviieQG 145 (273)
|+++..+.+++-.+|+.| |.+++.| .++.||.++.+ +-- ..=+++=+-- .++-|
T Consensus 10 ~~il~~~a~l~~a~~l~L--------yal~~ni---~~fy~Psel~~----~~~-------~~G~rlR~GG----lV~~G 63 (153)
T COG2332 10 WIILAGLAGLALAVGLVL--------YALRSNI---DYFYTPSELLE----GKV-------ETGQRLRLGG----LVEAG 63 (153)
T ss_pred HHHHHHHHHHHHHHHHHH--------hhhccCc---eEEECHHHhcc----ccc-------cCCcEEEEee----eEeec
Confidence 666666666665555433 5677654 68899988873 111 1113332221 35779
Q ss_pred hhhhhhceeEEEEEeeecCCCCCCCceeEeeccChhhHHH
Q 024078 146 CLQSIYGIHTFRVESIARGKAAPVDELQVQGVDNPVLLRK 185 (273)
Q Consensus 146 ~LqslfGl~~lrvEtaGqs~~~~~d~vql~GV~np~~FRk 185 (273)
.++|--+--+++|+-.-..+. -.|+-+||. |+.||+
T Consensus 64 Sv~R~~~~~~v~F~vtD~~~~---v~V~Y~GiL-PDLFRE 99 (153)
T COG2332 64 SVQRDPGSLKVSFVVTDGNKS---VTVSYEGIL-PDLFRE 99 (153)
T ss_pred eEEecCCCcEEEEEEecCCce---EEEEEeccC-chhhhc
Confidence 999988888888887743333 479999986 999997
No 8
>PRK01844 hypothetical protein; Provisional
Probab=37.79 E-value=51 Score=26.08 Aligned_cols=32 Identities=9% Similarity=0.069 Sum_probs=16.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhccc
Q 024078 63 TIIWFSISLLLVLAWGVGVFMLLYLPIRRYVLKKDIS 99 (273)
Q Consensus 63 t~~W~lislllvLaWgVGilmLLylPi~ryv~rkdi~ 99 (273)
+.+|+++.++.+++=++|.+.+. |..++++++
T Consensus 3 ~~~~I~l~I~~li~G~~~Gff~a-----rk~~~k~lk 34 (72)
T PRK01844 3 IWLGILVGVVALVAGVALGFFIA-----RKYMMNYLQ 34 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHH
Confidence 45566666665555555544433 333555554
No 9
>TIGR02841 spore_YyaC putative sporulation protein YyaC. A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, also called YyaC, is a member of that panel and is otherwise uncharacterized. The second round of PSI-BLAST shows many similarities to the germination protease GPR, which is found in exactly the same set of organisms and has a known role in the sporulation/germination process.
Probab=35.67 E-value=14 Score=32.32 Aligned_cols=53 Identities=19% Similarity=0.335 Sum_probs=33.2
Q ss_pred ehhhhhhhhceeEEEEEe------eecCC-CCCCCceeEeeccChhhHHHHHHHHHHHhh
Q 024078 143 EQGCLQSIYGIHTFRVES------IARGK-AAPVDELQVQGVDNPVLLRKVIVTEAAKVI 195 (273)
Q Consensus 143 eQG~LqslfGl~~lrvEt------aGqs~-~~~~d~vql~GV~np~~FRk~Il~q~s~l~ 195 (273)
..-||-+.=.+..+.+.+ +|.+| =.|+.|++|+||+|...|.+-..-|-.+|.
T Consensus 68 IDAcLG~~~~vG~I~~~~gpl~PG~gv~K~LP~VGd~sItGIVn~~g~~e~~~LqntRL~ 127 (140)
T TIGR02841 68 IDACLGRTKSVGHITIGKGPLKPGAAVNKDLPPVGDLSITGIVNVSGFMEFMVLQNTRLS 127 (140)
T ss_pred EECccCCcccccEEEeccCCCCCCcccCCCCCCCccEEEEEEEecCCcchhheeccccHH
Confidence 344444444444444443 44555 227899999999999999876555544443
No 10
>PRK07353 F0F1 ATP synthase subunit B'; Validated
Probab=35.11 E-value=67 Score=25.89 Aligned_cols=29 Identities=17% Similarity=0.361 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhhhhhhh
Q 024078 66 WFSISLLLVLAWGVGVFMLLYLPIRRYVLKK 96 (273)
Q Consensus 66 W~lislllvLaWgVGilmLLylPi~ryv~rk 96 (273)
++.+..+++|+|+++. ++|-|+..++-.|
T Consensus 9 ~~~~i~flil~~ll~~--~l~~pi~~~l~~R 37 (140)
T PRK07353 9 PLMAVQFVLLTFILNA--LFYKPVGKVVEER 37 (140)
T ss_pred HHHHHHHHHHHHHHHH--HHHHHHHHHHHHH
Confidence 3333456677777665 5788988775443
No 11
>PF06866 DUF1256: Protein of unknown function (DUF1256); InterPro: IPR009665 This family consists of several uncharacterised bacterial proteins, which seem to be specific to the orders Clostridia and Bacillales. Family members are typically around 180 residues in length. The function of this family is unknown.
Probab=33.89 E-value=11 Score=33.49 Aligned_cols=52 Identities=17% Similarity=0.321 Sum_probs=33.3
Q ss_pred ehhhhhhhhceeEEEEEe------eecCC--CCCCCceeEeeccChhhHHHHHHHHHHHhh
Q 024078 143 EQGCLQSIYGIHTFRVES------IARGK--AAPVDELQVQGVDNPVLLRKVIVTEAAKVI 195 (273)
Q Consensus 143 eQG~LqslfGl~~lrvEt------aGqs~--~~~~d~vql~GV~np~~FRk~Il~q~s~l~ 195 (273)
+.-||-+.=.+-.+.+.+ +|.+| | |+.|++|+||+|...|.....-|..+|.
T Consensus 92 IDAcLG~~~~vG~I~~~~gpl~PG~gv~K~LP-~VGd~sItGiVn~~g~~e~~~Lq~trL~ 151 (163)
T PF06866_consen 92 IDACLGRPDNVGYITLGNGPLKPGAGVGKKLP-PVGDISITGIVNVSGFMEYFVLQNTRLS 151 (163)
T ss_pred EECCCCCcccceEEEEcCCCCCCchhhCCCCC-CCcCEEEEEEEcCCCccceeeeccCcHH
Confidence 334444444444444433 45566 5 7999999999999999886655544443
No 12
>PF14812 PBP1_TM: Transmembrane domain of transglycosylase PBP1 at N-terminal; PDB: 3FWL_A 3VMA_A.
Probab=31.18 E-value=5 Score=32.11 Aligned_cols=13 Identities=46% Similarity=0.948 Sum_probs=6.5
Q ss_pred HHHHHHHHHHHHH
Q 024078 64 IIWFSISLLLVLA 76 (273)
Q Consensus 64 ~~W~lislllvLa 76 (273)
.+|+|+.+++|+|
T Consensus 67 wlwLlikl~lV~a 79 (81)
T PF14812_consen 67 WLWLLIKLFLVFA 79 (81)
T ss_dssp ----TTTTHCCHC
T ss_pred hHHHHHHHHHHhe
Confidence 4588888777654
No 13
>CHL00118 atpG ATP synthase CF0 B' subunit; Validated
Probab=30.09 E-value=90 Score=26.18 Aligned_cols=37 Identities=16% Similarity=0.406 Sum_probs=21.7
Q ss_pred cccchh-hHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhh
Q 024078 57 NSVKYD-TIIWFSISLLLVLAWGVGVFMLLYLPIRRYVLKK 96 (273)
Q Consensus 57 ~yvky~-t~~W~lislllvLaWgVGilmLLylPi~ryv~rk 96 (273)
+.+.++ |++|.++ .+++|+|+++ -++|-|+..++-.|
T Consensus 17 ~~~~~n~t~~~~~i-nFliL~~lL~--k~l~~Pi~~~l~~R 54 (156)
T CHL00118 17 GLFDFNATLPLMAL-QFLLLMVLLN--IILYKPLLKVLDER 54 (156)
T ss_pred CccccchHHHHHHH-HHHHHHHHHH--HHHHHHHHHHHHHH
Confidence 344454 3445444 5567777764 45788987775443
No 14
>PRK00523 hypothetical protein; Provisional
Probab=29.56 E-value=86 Score=24.84 Aligned_cols=32 Identities=16% Similarity=0.298 Sum_probs=17.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhccc
Q 024078 63 TIIWFSISLLLVLAWGVGVFMLLYLPIRRYVLKKDIS 99 (273)
Q Consensus 63 t~~W~lislllvLaWgVGilmLLylPi~ryv~rkdi~ 99 (273)
+.+|+++.++.+++=++|.+.+. |..+++++.
T Consensus 4 ~~l~I~l~i~~li~G~~~Gffia-----rk~~~k~l~ 35 (72)
T PRK00523 4 IGLALGLGIPLLIVGGIIGYFVS-----KKMFKKQIR 35 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHH
Confidence 55677766666555555554433 333666665
No 15
>PF02893 GRAM: GRAM domain; InterPro: IPR004182 The GRAM domain is found in glucosyltransferases, myotubularins and other putative membrane-associated proteins. It is normally about 70 amino acids in length. It is thought to be an intracellular protein-binding or lipid-binding signalling domain, which has an important function in membrane-associated processes. Mutations in the GRAM domain of myotubularins cause a muscle disease, which suggests that the domain is essential for the full function of the enzyme []. Myotubularin-related proteins are a large subfamily of protein tyrosine phosphatases (PTPs) that dephosphorylate D3-phosphorylated inositol lipids [].; PDB: 1M7R_B 1LW3_A 1ZVR_A 1ZSQ_A.
Probab=29.40 E-value=82 Score=22.39 Aligned_cols=42 Identities=21% Similarity=0.222 Sum_probs=25.9
Q ss_pred hccccceeEEecCceEEeecCCccccccccccccceecCcchheeeee
Q 024078 96 KDISSRKLYVTPSEIVYKVSRPSFIPFWGKTTNERHVPLSLVIDVIIE 143 (273)
Q Consensus 96 kdi~srkL~vT~~~ivYKvsRp~~fp~~Gv~r~Ek~VPL~~ItDviie 143 (273)
+-...-+||||++-+.|+-+.+-. ...=..+||..|.+|=-+
T Consensus 27 ~~~~~G~LyiT~~~lcF~s~~~~~------~~~~~~ipl~~I~~i~k~ 68 (69)
T PF02893_consen 27 KIPVQGRLYITNNYLCFYSNKFGS------KTCKFVIPLSDIKSIEKE 68 (69)
T ss_dssp ---EEEEEEEESSEEEEEESSSSS-------E-EEEEEGGGEEEEEEE
T ss_pred ccceeeEEEECCCEEEEEECCCCC------ceEEEEEEhHheeEEEEe
Confidence 345667999999988876643332 112356888888877544
No 16
>PRK14472 F0F1 ATP synthase subunit B; Provisional
Probab=28.09 E-value=1.2e+02 Score=25.89 Aligned_cols=47 Identities=17% Similarity=0.270 Sum_probs=26.1
Q ss_pred cchhhhhccchhhhccccchhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhh
Q 024078 42 SEEILYAASFEELASNSVKYDTIIWFSISLLLVLAWGVGVFMLLYLPIRRYVLKK 96 (273)
Q Consensus 42 ~e~iLy~ASF~e~~~~yvky~t~~W~lislllvLaWgVGilmLLylPi~ryv~rk 96 (273)
+..||.+..+ ....+.+++|.++.. ++++|++ .-++|=||...+-.|
T Consensus 4 ~~~~~~~~~~-----~~~~~~~~~~~~i~F-lil~~lL--~~~l~kpi~~~l~~R 50 (175)
T PRK14472 4 SGIILLSGGL-----LSPNPGLIFWTAVTF-VIVLLIL--KKIAWGPILSALEER 50 (175)
T ss_pred chhhhhcCCc-----cCCCHHHHHHHHHHH-HHHHHHH--HHHhHHHHHHHHHHH
Confidence 3455555553 122345677876654 4555553 344788888775443
No 17
>PF15050 SCIMP: SCIMP protein
Probab=27.76 E-value=77 Score=27.69 Aligned_cols=29 Identities=17% Similarity=0.344 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhcccc
Q 024078 66 WFSISLLLVLAWGVGVFMLLYLPIRRYVLKKDISS 100 (273)
Q Consensus 66 W~lislllvLaWgVGilmLLylPi~ryv~rkdi~s 100 (273)
|+++++..+++..+-.|+|. .+||.-++-
T Consensus 9 WiiLAVaII~vS~~lglIly------CvcR~~lRq 37 (133)
T PF15050_consen 9 WIILAVAIILVSVVLGLILY------CVCRWQLRQ 37 (133)
T ss_pred HHHHHHHHHHHHHHHHHHHH------HHHHHHHHc
Confidence 99888887777665555554 255555443
No 18
>PF14470 bPH_3: Bacterial PH domain
Probab=25.50 E-value=90 Score=22.87 Aligned_cols=68 Identities=13% Similarity=0.291 Sum_probs=41.0
Q ss_pred cceeEEecCceEEeecCCccccccccccccceecCcchheeeeehhhhhhhhceeEEEEEeeecCCCCCCCceeEeeccC
Q 024078 100 SRKLYVTPSEIVYKVSRPSFIPFWGKTTNERHVPLSLVIDVIIEQGCLQSIYGIHTFRVESIARGKAAPVDELQVQGVDN 179 (273)
Q Consensus 100 srkL~vT~~~ivYKvsRp~~fp~~Gv~r~Ek~VPL~~ItDviieQG~LqslfGl~~lrvEtaGqs~~~~~d~vql~GV~n 179 (273)
.--+.+|...+++.-. . +++| ..-..+|++.|++|-+..|-+. .+++|++-+ ..+++.-+ +
T Consensus 23 ~g~l~~TnkRlif~~~-~---~~~~--~~~~~i~y~~I~~v~~~~g~~~-----~~i~i~~~~-------~~~~i~~i-~ 83 (96)
T PF14470_consen 23 PGVLVLTNKRLIFYSK-G---MFGG--KKFESIPYDDITSVSFKKGILG-----GKITIETNG-------EKIKIDNI-Q 83 (96)
T ss_pred eeEEEEeCCEEEEEEc-c---cCCC--ceEEEEEhhheEEEEEEccccc-----cEEEEEECC-------EEEEEEEc-C
Confidence 3446777554443333 2 2223 4458999999999999998733 457888722 24555444 5
Q ss_pred hhhHHHH
Q 024078 180 PVLLRKV 186 (273)
Q Consensus 180 p~~FRk~ 186 (273)
...+++.
T Consensus 84 k~~~~~~ 90 (96)
T PF14470_consen 84 KGDVKEF 90 (96)
T ss_pred HHHHHHH
Confidence 5555543
No 19
>smart00568 GRAM domain in glucosyltransferases, myotubularins and other putative membrane-associated proteins.
Probab=24.51 E-value=73 Score=22.14 Aligned_cols=40 Identities=15% Similarity=0.392 Sum_probs=26.3
Q ss_pred hhccccceeEEecCceEEeecCCccccccccccccceecCcchhee
Q 024078 95 KKDISSRKLYVTPSEIVYKVSRPSFIPFWGKTTNERHVPLSLVIDV 140 (273)
Q Consensus 95 rkdi~srkL~vT~~~ivYKvsRp~~fp~~Gv~r~Ek~VPL~~ItDv 140 (273)
++-...-++|+|.+.+.|.-..+-.. ..-..+||..|+.|
T Consensus 18 ~~~~~~G~lyiT~~~l~F~S~~~~~~------~~~~~ipl~~I~~i 57 (61)
T smart00568 18 RDGPVQGRLYISNYRLCFRSDLPGKL------TPKVVIPLADITRI 57 (61)
T ss_pred CCccccEEEEEECCEEEEEccCCCCe------eEEEEEEHHHeeEE
Confidence 44566789999999888776443331 22456777777654
No 20
>KOG0629 consensus Glutamate decarboxylase and related proteins [Amino acid transport and metabolism]
Probab=24.25 E-value=31 Score=35.52 Aligned_cols=94 Identities=24% Similarity=0.194 Sum_probs=56.6
Q ss_pred eccChhhHHHHHHHHHHHhhhcccccccc-cccccccchhhhcccccc------------CcceecCCCccccccccCCc
Q 024078 176 GVDNPVLLRKVIVTEAAKVIQNSSKNWKV-NAFTGEVESMSRMASLTE------------GTAVLRSPSKSWKVKKIVRF 242 (273)
Q Consensus 176 GV~np~~FRk~Il~q~s~l~~~~~~~~~~-~~~s~e~~~~~r~~s~~e------------~~~~~~Spsks~k~~~sp~~ 242 (273)
|=..|++|++.|++-+.+=-...=-|-.. .+--|--..+...+-+.| |-..++|+-+.+|.++.-|.
T Consensus 233 Gkm~~~dLe~kile~k~kg~~Pf~vnaTaGTTV~GAFDdL~~iadiC~k~~lWmHvDAAwGGglLmS~k~R~kl~Giera 312 (510)
T KOG0629|consen 233 GKMIPDDLEKKILEAKAKGGVPFFVNATAGTTVLGAFDDLNGIADICEKHKLWMHVDAAWGGGLLMSRKHRHKLTGIERA 312 (510)
T ss_pred CccchHHHHHHHHHHHhcCCCCeEEEecCCceeeeccCcHHHHHHHHHhcCEEEEeecccccccccChhhHhhccCcccc
Confidence 66789999999999988722111000000 000011111111111111 11368899999999998888
Q ss_pred hH-------HHHHHHHhhhhheeeecccccccCc
Q 024078 243 SF-------LFQELVQGINQLKYLSVPLSQCNGQ 269 (273)
Q Consensus 243 ~~-------llqkL~e~~~slkri~~~l~~~~~~ 269 (273)
++ ++.-+-|-.+.+-|.+.+|.+||+-
T Consensus 313 ~SvtwnpHK~~gaplqCsa~l~r~~gll~~Cn~~ 346 (510)
T KOG0629|consen 313 NSVTWNPHKLMGAPLQCSAFLTREEGLLQRCNQM 346 (510)
T ss_pred CceeecHHHhhcCcchhhHHHHHHHHHHHhhccc
Confidence 77 3444567788899999999999974
No 21
>PF05569 Peptidase_M56: BlaR1 peptidase M56; InterPro: IPR008756 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to MEROPS peptidase family M56 (clan M-). The predicted active site residues for members of this family occur in the motif HEXXH. The type example is BlaR1 peptidase from Bacillus licheniformis. Production of beta-Lactamase and penicillin-binding protein 2a (which mediate staphylococcal resistance to beta-lactam antibiotics) is regulated by a signal-transducing integral membrane protein and a transcriptional repressor. The signal transducer is a fusion protein with penicillin-binding and zinc metalloprotease domains. The signal for protein expression is transmitted by site-specific proteolytic cleavage of both the transducer, which auto-activates, and the repressor, which is inactivated, unblocking gene transcription.
Probab=22.77 E-value=1.9e+02 Score=26.12 Aligned_cols=18 Identities=22% Similarity=0.359 Sum_probs=13.3
Q ss_pred ChhhHHHHHHHHHHHhhh
Q 024078 179 NPVLLRKVIVTEAAKVIQ 196 (273)
Q Consensus 179 np~~FRk~Il~q~s~l~~ 196 (273)
++.+++.++.-|...+++
T Consensus 192 ~~~el~~il~HEl~Hikr 209 (299)
T PF05569_consen 192 SEEELRAILLHELAHIKR 209 (299)
T ss_pred CHHHHHHHHHHHHHHHHC
Confidence 567777777777777765
No 22
>PF08512 Rtt106: Histone chaperone Rttp106-like; InterPro: IPR013719 This is a domain of unknown function that is associated with a number of different protein families. It is found in Rtt106p, which is a histone chaperone involved in heterochromatin-mediated silencing []. It is also found in genes annotated as transcription factors/regulators. This domain is the C-terminal domain of yeast Spt16p P32558 from SWISSPROT, which is a subunit of the heterodimeric yeast FACT complex (Spt16p-Pob3p, IPR000969 from INTERPRO) []. In addition Spt16p and its relatives, in this entry, are described as non-peptidase homologues belonging to the MEROPS peptidase family M24. The FACT complex facilitates RNA Polymerase II transcription elongation through nucleosomes by destabilising and then reassembling nucleosome structure [, ]. ; PDB: 3TW1_A 3GYO_A 3TO1_A 3FSS_A 3TVV_B 3GYP_A 2GCJ_D 2GCL_A.
Probab=22.50 E-value=2.7e+02 Score=21.78 Aligned_cols=64 Identities=20% Similarity=0.381 Sum_probs=42.2
Q ss_pred ccceeEEecCceEEeecCCccccccccccccceecCcchheeeeehhhhhhhhceeEEEEEeeecCCCCCCCceeEeecc
Q 024078 99 SSRKLYVTPSEIVYKVSRPSFIPFWGKTTNERHVPLSLVIDVIIEQGCLQSIYGIHTFRVESIARGKAAPVDELQVQGVD 178 (273)
Q Consensus 99 ~srkL~vT~~~ivYKvsRp~~fp~~Gv~r~Ek~VPL~~ItDviieQG~LqslfGl~~lrvEtaGqs~~~~~d~vql~GV~ 178 (273)
++--||.+++.+++=+.+|.++ +|++.|..|-++-- +..+..+|-+.-+-....+ ..+++.+|-
T Consensus 11 ~~g~L~pl~~~l~f~~~kP~~~-----------i~~~dI~~v~feRv---~~~~~ktFDl~v~~k~~~~--~~~~fs~I~ 74 (95)
T PF08512_consen 11 NEGFLYPLEKCLLFGLEKPPFV-----------IPLDDIESVEFERV---SSFSSKTFDLVVILKDYEG--PPHEFSSID 74 (95)
T ss_dssp EEEEEEEESSEEEEECSSS-EE-----------EEGGGEEEEEEE-----ESSSSSEEEEEEEETT-TS---EEEEEEEE
T ss_pred cCEEEEEccceEEEecCCCeEE-----------EEhhHeeEEEEEec---ccCcceEEEEEEEEecCCC--CcEEEeeEC
Confidence 3445788888888888888875 89999999988875 5566666666555543222 367777773
No 23
>PF12955 DUF3844: Domain of unknown function (DUF3844); InterPro: IPR024382 This presumed domain is found in fungal species. It contains 8 largely conserved cysteine residues. This domain is found in proteins thought to be located in the endoplasmic reticulum.
Probab=22.03 E-value=1.2e+02 Score=25.31 Aligned_cols=41 Identities=17% Similarity=0.285 Sum_probs=27.6
Q ss_pred chhhhhccchhhhccccchhhHHHHHHHHHHHHHHHHHHHH
Q 024078 43 EEILYAASFEELASNSVKYDTIIWFSISLLLVLAWGVGVFM 83 (273)
Q Consensus 43 e~iLy~ASF~e~~~~yvky~t~~W~lislllvLaWgVGilm 83 (273)
.++-|.-.==++.|--+.+.-+.|..+.++++++++|++|.
T Consensus 50 ktt~W~G~aCqKkDvS~~F~L~~~~ti~lv~~~~~~I~lL~ 90 (103)
T PF12955_consen 50 KTTHWGGPACQKKDVSVPFWLFAGFTIALVVLVAGAIGLLF 90 (103)
T ss_pred ceeeecccccccccccchhhHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444446667777777777888888888888877653
No 24
>PF06713 bPH_4: Bacterial PH domain; InterPro: IPR009589 This entry is represented by Bacteriophage SP-beta, YolF. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several hypothetical proteins specific to Oceanobacillus and Bacillus species. Members of this family are typically around 130 residues in length. The function of this family is unknown.
Probab=21.21 E-value=2.9e+02 Score=20.62 Aligned_cols=69 Identities=9% Similarity=0.073 Sum_probs=44.1
Q ss_pred EeecCCccccccccccccceecCcchheeeeehhhhhhhh-ceeEEEEEeeecCCCCCCCceeEeeccChhhHHHHHHH
Q 024078 112 YKVSRPSFIPFWGKTTNERHVPLSLVIDVIIEQGCLQSIY-GIHTFRVESIARGKAAPVDELQVQGVDNPVLLRKVIVT 189 (273)
Q Consensus 112 YKvsRp~~fp~~Gv~r~Ek~VPL~~ItDviieQG~Lqslf-Gl~~lrvEtaGqs~~~~~d~vql~GV~np~~FRk~Il~ 189 (273)
|.+....+....|..++. +|++.|+.|-=.-.|+.+.. .+.+|.|+.-+ - +.+.+ ==.|..+|-+++.+
T Consensus 3 Y~i~~~~L~I~~G~~~~~--I~i~~I~~I~~~~~~~~~~a~S~~rl~I~y~~---~---~~i~I-sP~~~~~FI~~L~k 72 (74)
T PF06713_consen 3 YIIEDDYLIIKCGFFKKK--IPIEDIRSIRPTKNPLSSPALSLDRLEIYYGK---Y---KSILI-SPKDKEEFIAELQK 72 (74)
T ss_pred EEEeCCEEEEEECCcccE--EEhHHccEEEecCCccccccccccEEEEEECC---C---CEEEE-ECCCHHHHHHHHHh
Confidence 333344444455545665 99999999988877776654 57788888651 1 23333 25688888777654
No 25
>PF11014 DUF2852: Protein of unknown function (DUF2852); InterPro: IPR021273 This bacterial family of proteins has no known function.
Probab=20.30 E-value=1.3e+02 Score=25.66 Aligned_cols=24 Identities=21% Similarity=0.498 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhh
Q 024078 67 FSISLLLVLAWGVGVFMLLYLPIR 90 (273)
Q Consensus 67 ~lislllvLaWgVGilmLLylPi~ 90 (273)
.+..+-+++.|=+|+.||.|.=-+
T Consensus 13 a~mVlGFi~fWPlGla~Lay~iw~ 36 (115)
T PF11014_consen 13 AAMVLGFIVFWPLGLALLAYMIWG 36 (115)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455666788999999999976443
No 26
>COG2187 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.25 E-value=51 Score=32.52 Aligned_cols=27 Identities=26% Similarity=0.528 Sum_probs=22.4
Q ss_pred EEecCceEEeecCCccccccccccccce
Q 024078 104 YVTPSEIVYKVSRPSFIPFWGKTTNERH 131 (273)
Q Consensus 104 ~vT~~~ivYKvsRp~~fp~~Gv~r~Ek~ 131 (273)
.+| ++..||++|||-|+|---.+-||+
T Consensus 33 ~L~-G~~AyK~KKPV~fgFlDfsTlekR 59 (337)
T COG2187 33 FLT-GDYAYKIKKPVNFGFLDFSTLEKR 59 (337)
T ss_pred EEE-cchhheecCCcccCcccCCCHHHH
Confidence 444 789999999999999888777764
Done!