Query 009939
Match_columns 522
No_of_seqs 188 out of 691
Neff 6.8
Searched_HMMs 46136
Date Thu Mar 28 19:07:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/009939.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/009939hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03140 DUF247: Plant protein 100.0 2E-106 4E-111 854.3 33.2 383 94-506 1-391 (391)
2 PF12911 OppC_N: N-terminal TM 60.1 9.3 0.0002 28.8 2.8 35 482-516 8-42 (56)
3 PF05767 Pox_A14: Poxvirus vir 56.6 18 0.00039 30.5 4.1 33 489-521 42-75 (92)
4 PF07438 DUF1514: Protein of u 53.0 15 0.00032 29.0 2.8 21 491-511 2-22 (66)
5 PRK10404 hypothetical protein; 52.4 14 0.00029 32.0 2.9 66 436-508 32-97 (101)
6 PHA02680 ORF090 IMV phosphoryl 51.7 24 0.00053 29.5 4.1 33 489-521 43-75 (91)
7 PRK10132 hypothetical protein; 45.2 21 0.00044 31.3 2.9 25 483-508 78-103 (108)
8 COG4575 ElaB Uncharacterized c 43.6 21 0.00045 31.0 2.6 24 484-508 76-100 (104)
9 PF09069 EF-hand_3: EF-hand; 41.5 40 0.00088 28.6 4.0 53 133-185 3-76 (90)
10 PF14770 TMEM18: Transmembrane 41.5 26 0.00056 31.5 3.0 49 464-515 55-103 (123)
11 PHA02898 virion envelope prote 36.9 56 0.0012 27.5 4.0 33 489-521 42-75 (92)
12 PHA03048 IMV membrane protein; 36.4 58 0.0013 27.5 4.0 33 489-521 41-74 (93)
13 KOG3110 Riboflavin kinase [Coe 34.1 33 0.00071 31.2 2.4 59 108-168 63-138 (153)
14 PF04531 Phage_holin_1: Bacter 32.4 49 0.0011 27.5 3.1 23 486-508 7-29 (84)
15 PF09820 AAA-ATPase_like: Pred 30.4 60 0.0013 33.1 4.0 61 433-498 222-283 (284)
16 PF11293 DUF3094: Protein of u 28.1 1.3E+02 0.0027 23.1 4.3 35 464-503 9-43 (55)
17 PF00690 Cation_ATPase_N: Cati 27.5 1.1E+02 0.0023 24.0 4.1 59 435-501 4-68 (69)
18 PF02468 PsbN: Photosystem II 26.2 58 0.0013 23.8 2.1 26 497-522 6-31 (43)
19 PHA02103 hypothetical protein 24.8 1E+02 0.0022 26.9 3.7 61 367-430 30-101 (135)
20 cd00925 Cyt_c_Oxidase_VIa Cyto 24.4 73 0.0016 26.8 2.7 27 488-514 13-39 (86)
21 PF05421 DUF751: Protein of un 20.9 1.5E+02 0.0033 23.3 3.7 30 486-515 30-59 (61)
22 PF04971 Lysis_S: Lysis protei 20.6 1.5E+02 0.0032 23.9 3.6 31 478-508 20-50 (68)
23 PF10961 DUF2763: Protein of u 20.3 1.2E+02 0.0027 25.6 3.4 29 488-516 13-44 (91)
No 1
>PF03140 DUF247: Plant protein of unknown function; InterPro: IPR004158 The function of the plant proteins constituting this family is unknown.
Probab=100.00 E-value=1.9e-106 Score=854.31 Aligned_cols=383 Identities=51% Similarity=0.903 Sum_probs=334.0
Q ss_pred EEecCccccccCCCCCcccceeeecCCCCCChhhccHHHHHHHHHHHHHhhcC---ccHHHHHHHHHHHHHHHHhccCCC
Q 009939 94 IYKVPQHLREGGDDRAYVPQIVSLGPYHHGKKRLRQMDRHKWRSLHHVLKRNS---QDIKIYLDSMKELEEKARACYEGP 170 (522)
Q Consensus 94 I~rVP~~lR~~~n~~aY~P~vVSIGPyHhg~~~L~~mE~~K~~~l~~~l~r~~---~~l~~~~~~i~~~e~~aR~cY~~~ 170 (522)
|||||+++|+ +|+++|+|++|||||||||+++|+.||++||+|+++|++|++ .++++++++|+++|++||+||+++
T Consensus 1 I~rVP~~lr~-~~~~~Y~P~~VsIGPyH~g~~~L~~mE~~K~~~l~~~l~~~~~~~~~l~~~~~~i~~~e~~~R~~Y~~~ 79 (391)
T PF03140_consen 1 IYRVPESLRD-VNPKAYTPQVVSIGPYHHGKPDLQEMEEHKLRYLHRFLKRSGAPAESLEDYVEAIRSLEEEARACYAED 79 (391)
T ss_pred CcCCCHHHcc-CCchhcCCceEEeCCCCCCchhhhhhHHHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHHHHHHhccc
Confidence 8999999999 999999999999999999999999999999999999999998 899999999999999999999999
Q ss_pred CC-CChHHHHHHHHHhHHHHHHHhhhhccCcccCCCCCCCc-ccccccchhhhhhhhhHhcccchHHHHHHHhhhhcC-C
Q 009939 171 IS-LSSNDFAEMMVLDGCFVLELFRGASEGFTRLGYPRNDP-VFAMRGSMHSIQRDMIMLENQLPLFILDRLLGLQFG-K 247 (522)
Q Consensus 171 i~-~~~~eF~~MmllDGCFiLe~l~~~~~~~~~~~~~~~dp-~~~~~~~~~~i~~DllLLENQIPffVL~~L~~l~~~-~ 247 (522)
++ +++++|++||++|||||||+|+.... +...+|| ++..+|.+..|++||+|||||||||||++||++..+ .
T Consensus 80 ~~~~~~~~f~~MmllDgCFlLe~~~~~~~-----~~~~~d~~~~~~~~~~~~i~~Dl~LLENQIPffVL~~L~~l~~~~~ 154 (391)
T PF03140_consen 80 IDDMSSDEFVEMMLLDGCFLLEFFLRYSR-----SDGENDPGIFSRPWLLSAIRRDLLLLENQIPFFVLEKLFELLFGSK 154 (391)
T ss_pred ccccCHHHHHHHHHHHHHHHHHHHHhhhh-----ccccccccccccccccccchhheeeecccchHHHHHHHHHHhcccc
Confidence 97 99999999999999999999998765 2235688 888899999999999999999999999999999873 2
Q ss_pred CchhhHHHHHHHHhcCCCCCCCCCCcccccchhhhhcCCCCCCCCCCCCCCCchhhhhhhhcccCCCCCCC-Cccchhcc
Q 009939 248 PEQKGLVAKLALRFFDPLMPTDEPLTKGERNKLESSLGNANFFDPLSDQCGLHCLDVFRKSLLRSGPKPEP-PKIWIKRW 326 (522)
Q Consensus 248 ~~~~~~~~~l~~~ff~~~~p~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~HlLdl~r~~~l~~~~~~~~-~~~~~~~~ 326 (522)
......+..++.+||....+...+ ..+.....+.|+|||+|.+++++.+.+.+ +......
T Consensus 155 ~~~~~~l~~l~~~~~~~~~~~~~~------------------~~~~~~~~~~HlL~L~~~~~~p~~~~~~~~~~~~~~~- 215 (391)
T PF03140_consen 155 SDVDESLIDLVLKFFYKHWPSWPP------------------DEPISNPEPHHLLDLLRMSLLPSPPSSSPTPPRPPRS- 215 (391)
T ss_pred cCccchHHHHHHhHhccccccccc------------------cccccCCCCCChHHHHHHHhccccCCcccCCCCcccc-
Confidence 334456788999999322111100 01222344699999999999983222111 1111000
Q ss_pred cccccccccccccccccHHHHHHcCcEEEecCCCc-ceeeEeCCceEEeceEEeeCCcchhhhhhhHhhhccCCCCCchh
Q 009939 327 SQTNRVADKRRQQLIHCVTELREAGVKFRKRKTDR-FWDIKFKNGILSIPRLFVHDGTKSLFLNLIAFEQCHFDCSNDIT 405 (522)
Q Consensus 327 ~~~~~~~~~~~~~~~~sAteL~eaGVkFk~~~~~~-llDI~F~~G~L~IP~L~Idd~T~~llrNLiAfEqc~~~~~~~vT 405 (522)
.........+|||+||++|||+||++++.+ ++||+|++|+|+||+|.||++|+++||||||||||+...+.+||
T Consensus 216 -----~~~~~~~~~~~sA~eL~~aGV~fk~~~~~~~~lDv~F~~G~L~IP~L~id~~T~~~lrNLiA~Eq~~~~~~~~vt 290 (391)
T PF03140_consen 216 -----NGEKPPPKRIRSATELREAGVKFKPSETDRSLLDVKFKKGVLEIPPLYIDDNTESLLRNLIAFEQCHPPTGSYVT 290 (391)
T ss_pred -----cccccccccCCCHHHHHhCCcEEeeccCccccccceecCCEEEeCeEEECCcchHHHhHHHHHHHHhccCCchHh
Confidence 000123467999999999999999999874 99999999999999999999999999999999999988899999
Q ss_pred hHHHHHhhccCChhhHHHHHHCCceeccCCChHHHHHHHHHhhcccccCCCCchHHHHHHHHHHHhcCchHHHhHhhccc
Q 009939 406 SFVIFMDNLINSPEDVGYLHYCGIIEHWLGSDAEVADLFNRLCEEVVFDINDSYLSRLSEDVNQYYNHKWNAWRASLRHK 485 (522)
Q Consensus 406 sYv~fM~~LI~t~eDV~lL~~kGII~n~lgsdeeVa~lFn~L~k~v~~d~~~~yl~~v~~~l~~y~~~rw~~w~a~l~~~ 485 (522)
||+.||++||+|++||++|+++|||+|++|||+|||+|||+||++++++.+++||.+++++||+||++||++|+|+++|+
T Consensus 291 sY~~fm~~Li~t~~DV~lL~~kgIi~~~l~~d~eva~~F~~L~~~v~~~~~~~~~~~v~~~l~~~~~~~~~~~~a~l~~~ 370 (391)
T PF03140_consen 291 SYVFFMDSLINTPEDVELLRRKGIIVNWLGSDEEVAKLFNGLCKGVVFDVDDSYYSDVCEDLNKYYQSRWNRWWAWLRRK 370 (391)
T ss_pred HHHHHHHHHhCcHhhHHHHHhCCeEecCCCCcHHHHHHHHHHhccCCCCCccHHHHHHHHHHHHHhcChHHHHHHHHhhh
Confidence 99999999999999999999999999999999999999999999999987789999999999999999999999999999
Q ss_pred cccchhHHHHHHHHHHHHHHH
Q 009939 486 YFNNPWAIISLVAAVVLLLLT 506 (522)
Q Consensus 486 yf~nPW~~is~vaAvvlL~lT 506 (522)
||+|||+++|++||+++|+||
T Consensus 371 yf~~pw~~is~~aa~~ll~lT 391 (391)
T PF03140_consen 371 YFSNPWTFISLVAAIILLLLT 391 (391)
T ss_pred hcCCcHHHHHHHHHHHHHHhC
Confidence 999999999999999999998
No 2
>PF12911 OppC_N: N-terminal TM domain of oligopeptide transport permease C
Probab=60.10 E-value=9.3 Score=28.75 Aligned_cols=35 Identities=26% Similarity=0.486 Sum_probs=28.8
Q ss_pred hccccccchhHHHHHHHHHHHHHHHHHHHhhhhcc
Q 009939 482 LRHKYFNNPWAIISLVAAVVLLLLTFAQTFYGVYG 516 (522)
Q Consensus 482 l~~~yf~nPW~~is~vaAvvlL~lT~~QT~~sv~~ 516 (522)
..+++++|+.++++++.-++++++.++..+.+-+.
T Consensus 8 ~~~~f~~nk~a~~gl~il~~~vl~ai~~p~~~p~~ 42 (56)
T PF12911_consen 8 AWRRFRRNKLAVIGLIILLILVLLAIFAPFISPYD 42 (56)
T ss_pred HHHHHHhCchHHHHHHHHHHHHHHHHHHHHcCCCC
Confidence 34778899999999999988888998888876654
No 3
>PF05767 Pox_A14: Poxvirus virion envelope protein A14; InterPro: IPR008785 This family consists of several Poxvirus virion envelope protein A14-like sequences. A14 is a component of the virion membrane and has been found to be an H1 phosphatase substrate in vivo and in vitro. A14 is hyperphosphorylated on serine residues in the absence of H1 expression [].; GO: 0019031 viral envelope
Probab=56.55 E-value=18 Score=30.52 Aligned_cols=33 Identities=24% Similarity=0.680 Sum_probs=26.9
Q ss_pred chhHHHHHHHHHHHHHHHHHHHhhhhc-cccCCC
Q 009939 489 NPWAIISLVAAVVLLLLTFAQTFYGVY-GYYRPV 521 (522)
Q Consensus 489 nPW~~is~vaAvvlL~lT~~QT~~sv~-~y~~~~ 521 (522)
.+|.++|.++-++..++|+==-+||.+ .|++|+
T Consensus 42 ~~wRalSii~FI~giil~lG~~i~s~ygr~C~~s 75 (92)
T PF05767_consen 42 YTWRALSIICFILGIILTLGIVIFSMYGRYCRPS 75 (92)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCC
Confidence 578888888888888888877889988 777764
No 4
>PF07438 DUF1514: Protein of unknown function (DUF1514); InterPro: IPR009999 This entry is represented by Bacteriophage phi PVL, Orf60. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several Staphylococcus aureus and related bacteriophage proteins of around 65 residues in length. The function of this family is unknown.
Probab=52.99 E-value=15 Score=29.03 Aligned_cols=21 Identities=38% Similarity=0.591 Sum_probs=19.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHh
Q 009939 491 WAIISLVAAVVLLLLTFAQTF 511 (522)
Q Consensus 491 W~~is~vaAvvlL~lT~~QT~ 511 (522)
|.++|.+-|+++|++-.+|+-
T Consensus 2 WIiiSIvLai~lLI~l~~ns~ 22 (66)
T PF07438_consen 2 WIIISIVLAIALLISLSVNSE 22 (66)
T ss_pred hhhHHHHHHHHHHHHHhhhHH
Confidence 999999999999999888875
No 5
>PRK10404 hypothetical protein; Provisional
Probab=52.45 E-value=14 Score=32.05 Aligned_cols=66 Identities=21% Similarity=0.176 Sum_probs=33.2
Q ss_pred ChHHHHHHHHHhhcccccCCCCchHHHHHHHHHHHhcCchHHHhHhhccccccchhHHHHHHHHHHHHHHHHH
Q 009939 436 SDAEVADLFNRLCEEVVFDINDSYLSRLSEDVNQYYNHKWNAWRASLRHKYFNNPWAIISLVAAVVLLLLTFA 508 (522)
Q Consensus 436 sdeeVa~lFn~L~k~v~~d~~~~yl~~v~~~l~~y~~~rw~~w~a~l~~~yf~nPW~~is~vaAvvlL~lT~~ 508 (522)
+.+++.++-.++...+.- -...+.+.-+.+-.-+ +..-..-..+.|+ |||..+++.|+ ++|++.++
T Consensus 32 a~e~~~~lR~r~~~~L~~--ar~~l~~~~~~~~~~~-k~aa~~td~yV~e---~Pw~avGiaag-vGlllG~L 97 (101)
T PRK10404 32 ADQKYVELKARAEKALDD--VKKRVSQASDSYYYRA-KQAVYRADDYVHE---KPWQGIGVGAA-VGLVLGLL 97 (101)
T ss_pred hHHHHHHHHHHHHHHHHH--HHHHHHHhHHHHHHHH-HHHHHHHHHHHHh---CcHHHHHHHHH-HHHHHHHH
Confidence 566777777777543321 0112222222221111 1122222344555 99999997555 67777665
No 6
>PHA02680 ORF090 IMV phosphorylated membrane protein; Provisional
Probab=51.72 E-value=24 Score=29.54 Aligned_cols=33 Identities=15% Similarity=0.277 Sum_probs=25.1
Q ss_pred chhHHHHHHHHHHHHHHHHHHHhhhhccccCCC
Q 009939 489 NPWAIISLVAAVVLLLLTFAQTFYGVYGYYRPV 521 (522)
Q Consensus 489 nPW~~is~vaAvvlL~lT~~QT~~sv~~y~~~~ 521 (522)
.+|..+|.++-+++.++++==-+||.+.|+.|+
T Consensus 43 ~~wRalSii~FIlG~vl~lGilifs~y~~C~~~ 75 (91)
T PHA02680 43 YVWRALSVTCFIVGAVLLLGLFVFSMYRKCSGS 75 (91)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHhcccCCC
Confidence 578887777777777777767788888887764
No 7
>PRK10132 hypothetical protein; Provisional
Probab=45.17 E-value=21 Score=31.35 Aligned_cols=25 Identities=20% Similarity=0.480 Sum_probs=17.2
Q ss_pred ccccc-cchhHHHHHHHHHHHHHHHHH
Q 009939 483 RHKYF-NNPWAIISLVAAVVLLLLTFA 508 (522)
Q Consensus 483 ~~~yf-~nPW~~is~vaAvvlL~lT~~ 508 (522)
-..|. .|||..+++.|+ +++++.++
T Consensus 78 ~~~~V~~~Pw~svgiaag-vG~llG~L 103 (108)
T PRK10132 78 ADTFVRERPWCSVGTAAA-VGIFIGAL 103 (108)
T ss_pred HHHHHHhCcHHHHHHHHH-HHHHHHHH
Confidence 34454 499999997555 67777665
No 8
>COG4575 ElaB Uncharacterized conserved protein [Function unknown]
Probab=43.64 E-value=21 Score=31.04 Aligned_cols=24 Identities=42% Similarity=0.715 Sum_probs=16.5
Q ss_pred cccc-cchhHHHHHHHHHHHHHHHHH
Q 009939 484 HKYF-NNPWAIISLVAAVVLLLLTFA 508 (522)
Q Consensus 484 ~~yf-~nPW~~is~vaAvvlL~lT~~ 508 (522)
.+|. -|||..|++-||| +|++.++
T Consensus 76 D~yV~e~PWq~VGvaAaV-GlllGlL 100 (104)
T COG4575 76 DDYVRENPWQGVGVAAAV-GLLLGLL 100 (104)
T ss_pred HHHHHcCCchHHHHHHHH-HHHHHHH
Confidence 3444 4999999987774 6666553
No 9
>PF09069 EF-hand_3: EF-hand; InterPro: IPR015154 Like other EF hand domains, this domain forms a helix-loop-helix motif, though since it does not contain the canonical pattern of calcium binding residues found in many EF hand domains, it does not bind calcium ions. The main function of this domain is the provision of specificity in beta-dystroglycan recognition, though in dystrophin it serves an additional role: stabilisation of the WW domain (IPR001202 from INTERPRO), enhancing dystroglycan binding []. ; PDB: 1EG3_A 1EG4_A.
Probab=41.52 E-value=40 Score=28.55 Aligned_cols=53 Identities=17% Similarity=0.478 Sum_probs=32.5
Q ss_pred HHHHHHHHHHhhcCc-----cHHHHHHHH-------------HHHHHHHHhccCC---CCCCChHHHHHHHHHh
Q 009939 133 HKWRSLHHVLKRNSQ-----DIKIYLDSM-------------KELEEKARACYEG---PISLSSNDFAEMMVLD 185 (522)
Q Consensus 133 ~K~~~l~~~l~r~~~-----~l~~~~~~i-------------~~~e~~aR~cY~~---~i~~~~~eF~~MmllD 185 (522)
.|.||+-+.+..++. .++.|+..+ ...|..+|+|+.. .-+++-++|+..|..|
T Consensus 3 dKyRylFslisd~~g~~~~~~l~~lL~d~lqip~~vgE~~aFg~~e~sv~sCF~~~~~~~~I~~~~Fl~wl~~e 76 (90)
T PF09069_consen 3 DKYRYLFSLISDSNGCMDQRKLGLLLHDVLQIPRAVGEGPAFGYIEPSVRSCFQQVQLSPKITENQFLDWLMSE 76 (90)
T ss_dssp HHHHHHHHHHS-TTS-B-HHHHHHHHHHHHHHHHHTT-GGGGT--HHHHHHHHHHTTT-S-B-HHHHHHHHHT-
T ss_pred HHHHHHHHHHcCCCCCCcHHHHHHHHHHHHHHHHHhCccccccCcHHHHHHHhcccCCCCccCHHHHHHHHHhC
Confidence 589999988876542 244444332 2357789999976 4478889998888766
No 10
>PF14770 TMEM18: Transmembrane protein 18
Probab=41.50 E-value=26 Score=31.48 Aligned_cols=49 Identities=29% Similarity=0.489 Sum_probs=37.6
Q ss_pred HHHHHHHhcCchHHHhHhhccccccchhHHHHHHHHHHHHHHHHHHHhhhhc
Q 009939 464 SEDVNQYYNHKWNAWRASLRHKYFNNPWAIISLVAAVVLLLLTFAQTFYGVY 515 (522)
Q Consensus 464 ~~~l~~y~~~rw~~w~a~l~~~yf~nPW~~is~vaAvvlL~lT~~QT~~sv~ 515 (522)
.+.+|++..+.| +..-+++||.+-=.+||++-++=+|+.+++..+..++
T Consensus 55 aE~iN~~~a~nW---~~Fs~qnYFDs~G~Fisvv~s~PlLl~~~ii~~~~l~ 103 (123)
T PF14770_consen 55 AEYINEYAARNW---RSFSKQNYFDSSGVFISVVFSAPLLLNCLIILVNWLY 103 (123)
T ss_pred HHHHHHHHHHHH---HHHhhccCcCCCCeeehHHHHHhHHHHHHHHHHHHHH
Confidence 478999987766 4555689999888999999887777777766665554
No 11
>PHA02898 virion envelope protein; Provisional
Probab=36.89 E-value=56 Score=27.53 Aligned_cols=33 Identities=15% Similarity=0.379 Sum_probs=21.9
Q ss_pred chhHHHHHHHHHHHHHHHHHHHhhhhcc-ccCCC
Q 009939 489 NPWAIISLVAAVVLLLLTFAQTFYGVYG-YYRPV 521 (522)
Q Consensus 489 nPW~~is~vaAvvlL~lT~~QT~~sv~~-y~~~~ 521 (522)
++|..+|.++-+++.++++==-+|+.+. |+.|+
T Consensus 42 ~~wRalSii~FIlgivl~lG~~ifs~y~r~C~~~ 75 (92)
T PHA02898 42 SALRSISIISFILAIILILGIIFFKGYNMFCGGN 75 (92)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCC
Confidence 4677776666666666666666788777 66654
No 12
>PHA03048 IMV membrane protein; Provisional
Probab=36.35 E-value=58 Score=27.46 Aligned_cols=33 Identities=27% Similarity=0.610 Sum_probs=26.3
Q ss_pred chhHHHHHHHHHHHHHHHHHHHhhhhcc-ccCCC
Q 009939 489 NPWAIISLVAAVVLLLLTFAQTFYGVYG-YYRPV 521 (522)
Q Consensus 489 nPW~~is~vaAvvlL~lT~~QT~~sv~~-y~~~~ 521 (522)
++|..+|.++-+++.++|+==-+||.+. |+.|+
T Consensus 41 ~~wRalsii~FIlgivl~lG~~ifsmy~r~C~~~ 74 (93)
T PHA03048 41 TVWRALSGIAFVLGIVMTIGMLIYSMWGRYCTPS 74 (93)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCC
Confidence 6788888888777777787777899998 77765
No 13
>KOG3110 consensus Riboflavin kinase [Coenzyme transport and metabolism]
Probab=34.08 E-value=33 Score=31.25 Aligned_cols=59 Identities=22% Similarity=0.353 Sum_probs=37.1
Q ss_pred CCcccceeeec--CCCCCChhhccHHHHH-----HHHHHHHHh-------hcC---ccHHHHHHHHHHHHHHHHhccC
Q 009939 108 RAYVPQIVSLG--PYHHGKKRLRQMDRHK-----WRSLHHVLK-------RNS---QDIKIYLDSMKELEEKARACYE 168 (522)
Q Consensus 108 ~aY~P~vVSIG--PyHhg~~~L~~mE~~K-----~~~l~~~l~-------r~~---~~l~~~~~~i~~~e~~aR~cY~ 168 (522)
.---|+++||| ||+.++. +.||-|= --+-...++ |.. .+++.++++|..-.+.|++.-+
T Consensus 63 ~~v~kMvmSIGwNP~Y~N~~--Kt~E~hlih~f~~DFYge~l~~~IvGyiRpe~nf~slesLi~~I~~Di~vA~~~l~ 138 (153)
T KOG3110|consen 63 GDVFKMVMSIGWNPYYKNKK--KTMELHLIHDFGEDFYGETLKVIIVGYIRPELNFDSLESLIEAIHGDIEVAKKVLD 138 (153)
T ss_pred CCceeEEEEcccCcccCCcc--cceeeeeehhcccchhhheeeEEEEEeeccccCcchHHHHHHHHHhhHHHHHHhhc
Confidence 33458999999 9988874 4455443 222222222 121 3588899999888888887554
No 14
>PF04531 Phage_holin_1: Bacteriophage holin; InterPro: IPR006485 Phage proteins for bacterial lysis typically include a membrane-disrupting protein, or holin, and one or more cell wall degrading enzymes that reach the cell wall because of holin action. Holins are found in a large number of mutually non-homologous families. This entry is represented by the Bacteriophage phi-LC3, holin. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=32.42 E-value=49 Score=27.54 Aligned_cols=23 Identities=26% Similarity=0.436 Sum_probs=14.4
Q ss_pred cccchhHHHHHHHHHHHHHHHHH
Q 009939 486 YFNNPWAIISLVAAVVLLLLTFA 508 (522)
Q Consensus 486 yf~nPW~~is~vaAvvlL~lT~~ 508 (522)
-|.||-..+++++|+++++.++.
T Consensus 7 R~kN~~~w~ali~~i~l~vq~~~ 29 (84)
T PF04531_consen 7 RFKNKAFWVALISAILLLVQQVG 29 (84)
T ss_pred cccCHHHHHHHHHHHHHHHHHHH
Confidence 35677666777777665555443
No 15
>PF09820 AAA-ATPase_like: Predicted AAA-ATPase; InterPro: IPR018631 This entry is predicted to be an AAA-ATPase domain []. It is usually found together with IPR012547 from INTERPRO.
Probab=30.44 E-value=60 Score=33.12 Aligned_cols=61 Identities=18% Similarity=0.415 Sum_probs=40.2
Q ss_pred cCC-ChHHHHHHHHHhhcccccCCCCchHHHHHHHHHHHhcCchHHHhHhhccccccchhHHHHHHH
Q 009939 433 WLG-SDAEVADLFNRLCEEVVFDINDSYLSRLSEDVNQYYNHKWNAWRASLRHKYFNNPWAIISLVA 498 (522)
Q Consensus 433 ~lg-sdeeVa~lFn~L~k~v~~d~~~~yl~~v~~~l~~y~~~rw~~w~a~l~~~yf~nPW~~is~va 498 (522)
.+| +++||.++|+...+.+.... -.....++|.++|+.-...+.+. ..-..|||.++.++.
T Consensus 222 ~~GFT~~Ev~~ll~~~~~~~~~~~---~~~~~~~~lk~wYdGY~F~~~~~--~~~iYNP~Svl~~l~ 283 (284)
T PF09820_consen 222 YFGFTEEEVETLLKYYIENLAEEQ---DREELLEELKEWYDGYHFGESSE--GERIYNPWSVLNYLK 283 (284)
T ss_pred hcCcCHHHHHHHHHHHHHHhhhcc---chHHHHHHHHHHcCCcccCCCCC--CCCEEChHHHHHHhh
Confidence 345 89999999999876654322 23567899999997643221110 234569999887653
No 16
>PF11293 DUF3094: Protein of unknown function (DUF3094); InterPro: IPR021444 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=28.12 E-value=1.3e+02 Score=23.14 Aligned_cols=35 Identities=26% Similarity=0.528 Sum_probs=25.5
Q ss_pred HHHHHHHhcCchHHHhHhhccccccchhHHHHHHHHHHHH
Q 009939 464 SEDVNQYYNHKWNAWRASLRHKYFNNPWAIISLVAAVVLL 503 (522)
Q Consensus 464 ~~~l~~y~~~rw~~w~a~l~~~yf~nPW~~is~vaAvvlL 503 (522)
.++|++|-++.||.- -|+-|+ ||..+.++.|++..
T Consensus 9 Q~~Vd~yL~a~~~~V----ER~PFr-P~~Ll~~li~Vv~g 43 (55)
T PF11293_consen 9 QQRVDEYLQAGVNQV----ERKPFR-PWRLLIVLIVVVIG 43 (55)
T ss_pred HHHHHHHHhCCCCcc----ccCCcc-hHHHHHHHHHHHHH
Confidence 467888989888743 466664 89988888886543
No 17
>PF00690 Cation_ATPase_N: Cation transporter/ATPase, N-terminus; InterPro: IPR004014 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. P-ATPases (sometime known as E1-E2 ATPases) (3.6.3.- from EC) are found in bacteria and in a number of eukaryotic plasma membranes and organelles []. P-ATPases function to transport a variety of different compounds, including ions and phospholipids, across a membrane using ATP hydrolysis for energy. There are many different classes of P-ATPases, each of which transports a specific type of ion: H+, Na+, K+, Mg2+, Ca2+, Ag+ and Ag2+, Zn2+, Co2+, Pb2+, Ni2+, Cd2+, Cu+ and Cu2+. P-ATPases can be composed of one or two polypeptides, and can usually assume two main conformations called E1 and E2. This entry represents the conserved N-terminal region found in several classes of cation-transporting P-type ATPases, including those that transport H+ (3.6.3.6 from EC), Na+ (3.6.3.7 from EC), Ca2+ (3.6.3.8 from EC), Na+/K+ (3.6.3.9 from EC), and H+/K+ (3.6.3.10 from EC). In the H+/K+- and Na+/K+-exchange P-ATPases, this domain is found in the catalytic alpha chain. In gastric H+/K+-ATPases, this domain undergoes reversible sequential phosphorylation inducing conformational changes that may be important for regulating the function of these ATPases [, ]. More information about this protein can be found at Protein of the Month: ATP Synthases [].; PDB: 3KDP_C 3N2F_A 3B8E_A 3N23_A 2XZB_A 1MHS_B 3A3Y_A 2ZXE_A 3B8C_A 3B9B_A ....
Probab=27.47 E-value=1.1e+02 Score=23.97 Aligned_cols=59 Identities=22% Similarity=0.278 Sum_probs=32.3
Q ss_pred CChHHHHHHHH-HhhcccccCCCCchHHHHHHHHHHHhcCc-----hHHHhHhhccccccchhHHHHHHHHHH
Q 009939 435 GSDAEVADLFN-RLCEEVVFDINDSYLSRLSEDVNQYYNHK-----WNAWRASLRHKYFNNPWAIISLVAAVV 501 (522)
Q Consensus 435 gsdeeVa~lFn-~L~k~v~~d~~~~yl~~v~~~l~~y~~~r-----w~~w~a~l~~~yf~nPW~~is~vaAvv 501 (522)
.+-++|++.|+ +...++.- ..+-+...+|=.+. -..|...+.+ .|.||+.++=++||++
T Consensus 4 ~~~~~v~~~l~t~~~~GLs~-------~ev~~r~~~~G~N~l~~~~~~s~~~~~~~-~f~~~~~~lL~~aail 68 (69)
T PF00690_consen 4 LSVEEVLKRLNTSSSQGLSS-------EEVEERRKKYGPNELPEPKKKSLWRIFLK-QFKNPFIILLLIAAIL 68 (69)
T ss_dssp SSHHHHHHHHTTBTSSBBTH-------HHHHHHHHHHSSSSTTTTTSSSHHHHHHH-HTTSHHHHHHHHHHHH
T ss_pred CCHHHHHHHHCcCCCCCCCH-------HHHHHHHHhcccccccccccCcHHHHHHH-HHHhHHHHHHHHHHHH
Confidence 35667766665 44444321 34555555552221 1223333333 4799999888888865
No 18
>PF02468 PsbN: Photosystem II reaction centre N protein (psbN); InterPro: IPR003398 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein PsbN found in PSII. PsbN may have a role in PSII stability, however its actual function unknown. PsbN does not appear to be essential for photoautotrophic growth or normal PSII function.; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane
Probab=26.24 E-value=58 Score=23.76 Aligned_cols=26 Identities=31% Similarity=0.441 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHHhhhhccccCCCC
Q 009939 497 VAAVVLLLLTFAQTFYGVYGYYRPVS 522 (522)
Q Consensus 497 vaAvvlL~lT~~QT~~sv~~y~~~~~ 522 (522)
+.++.+.++.+-=|-|++|.-+-|+|
T Consensus 6 ~~~i~i~~~lv~~Tgy~iYtaFGppS 31 (43)
T PF02468_consen 6 VLAIFISCLLVSITGYAIYTAFGPPS 31 (43)
T ss_pred eHHHHHHHHHHHHHhhhhhheeCCCc
Confidence 33444444444445688888777664
No 19
>PHA02103 hypothetical protein
Probab=24.76 E-value=1e+02 Score=26.94 Aligned_cols=61 Identities=16% Similarity=0.361 Sum_probs=43.5
Q ss_pred eCCceE--EeceEEeeCCcchhhhhhhHhhhccCCC-----C----CchhhHHHHHhhccCChhhHHHHHHCCce
Q 009939 367 FKNGIL--SIPRLFVHDGTKSLFLNLIAFEQCHFDC-----S----NDITSFVIFMDNLINSPEDVGYLHYCGII 430 (522)
Q Consensus 367 F~~G~L--~IP~L~Idd~T~~llrNLiAfEqc~~~~-----~----~~vTsYv~fM~~LI~t~eDV~lL~~kGII 430 (522)
|++.+| +||.+..|....-+-|=.+-+|.|.... + ++|-.|-.... ..+|-|++-.+-|+=
T Consensus 30 f~d~t~~~e~pai~~~~~~~ei~rl~~f~~kck~~yp~gkgg~~df~~ipdyyryf~---ee~e~ie~we~ygve 101 (135)
T PHA02103 30 FSDATLEYEIPAIDADRTKAEIVRLITFMDKCKAEYPRGKGGQADFNHIPDYYRYFG---EEAEGVELWEEYGVE 101 (135)
T ss_pred cCcceeEEeccccccchhhHHHHHHHHHHHHHHhhCCCCCCCccccccChHHHHHhc---ccchhhhHHHHhCcc
Confidence 344554 7999999999999999999999995321 1 35666655443 456777777777764
No 20
>cd00925 Cyt_c_Oxidase_VIa Cytochrome c oxidase subunit VIa. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit VIa is expressed in two tissue-specific isoforms in mammals but not fish. VIa-H is the heart and skeletal muscle isoform; VIa-L is the liver or non-muscle isoform. Mammalian VIa-H induces a slip in CcO (decrease in proton/electron stoichiometry) at high intramitochondrial ATP/ADP ratios, while VIa-L induces a permanent slip i
Probab=24.43 E-value=73 Score=26.81 Aligned_cols=27 Identities=19% Similarity=0.340 Sum_probs=22.8
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHhhhh
Q 009939 488 NNPWAIISLVAAVVLLLLTFAQTFYGV 514 (522)
Q Consensus 488 ~nPW~~is~vaAvvlL~lT~~QT~~sv 514 (522)
.+-|..||+++|+-+++|+.+.++..-
T Consensus 13 ~~~WkkiS~~va~P~v~l~~~n~y~~~ 39 (86)
T cd00925 13 SELWKKISFYVALPAVALCMLNAYLKH 39 (86)
T ss_pred hhhhhhhhhhhHHHHHHHHHHHHHhhh
Confidence 356888999999999999999988654
No 21
>PF05421 DUF751: Protein of unknown function (DUF751); InterPro: IPR008470 This family, Ycf33, contains several plant, cyanobacterial and algal chlorplast encoded proteins of unknown function. The family is exclusively found in phototrophic organisms and may therefore play a role in photosynthesis.
Probab=20.92 E-value=1.5e+02 Score=23.26 Aligned_cols=30 Identities=17% Similarity=0.268 Sum_probs=24.7
Q ss_pred cccchhHHHHHHHHHHHHHHHHHHHhhhhc
Q 009939 486 YFNNPWAIISLVAAVVLLLLTFAQTFYGVY 515 (522)
Q Consensus 486 yf~nPW~~is~vaAvvlL~lT~~QT~~sv~ 515 (522)
-++||-+.++++++++..+..+.+|.=+++
T Consensus 30 llk~p~tai~~i~~~~~~~~~l~~tL~aMl 59 (61)
T PF05421_consen 30 LLKNPVTAIALIGILIGGFIFLYFTLRAML 59 (61)
T ss_pred HhcCchHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 357899999999999999888888876553
No 22
>PF04971 Lysis_S: Lysis protein S ; InterPro: IPR007054 The lysis S protein is a cytotoxic protein forming holes in membranes causing cell lysis. The action of Lysis S is independent of the proportion of acidic phospholipids in the membrane [].
Probab=20.61 E-value=1.5e+02 Score=23.91 Aligned_cols=31 Identities=26% Similarity=0.625 Sum_probs=23.4
Q ss_pred HhHhhccccccchhHHHHHHHHHHHHHHHHH
Q 009939 478 WRASLRHKYFNNPWAIISLVAAVVLLLLTFA 508 (522)
Q Consensus 478 w~a~l~~~yf~nPW~~is~vaAvvlL~lT~~ 508 (522)
|...+...+-+.-|..|++++.+++-++|.+
T Consensus 20 wl~~lld~~sp~qW~aIGvi~gi~~~~lt~l 50 (68)
T PF04971_consen 20 WLLQLLDQFSPSQWAAIGVIGGIFFGLLTYL 50 (68)
T ss_pred HHHHHHhccCcccchhHHHHHHHHHHHHHHH
Confidence 4445555566678999999999888888865
No 23
>PF10961 DUF2763: Protein of unknown function (DUF2763); InterPro: IPR024491 This entry represents an eukaryotic family of selenoproteins. It includes SelK, which seems to play an important role in protecting cells from endoplasmic reticulum stress-induced apoptosis [] and SelG, which may be involved in regulating the redox state of the cell [].
Probab=20.29 E-value=1.2e+02 Score=25.64 Aligned_cols=29 Identities=21% Similarity=0.541 Sum_probs=19.4
Q ss_pred cchhH---HHHHHHHHHHHHHHHHHHhhhhcc
Q 009939 488 NNPWA---IISLVAAVVLLLLTFAQTFYGVYG 516 (522)
Q Consensus 488 ~nPW~---~is~vaAvvlL~lT~~QT~~sv~~ 516 (522)
++||. ++-++-+++-++..++||+++.-.
T Consensus 13 rspWrls~I~d~Fwgi~~fI~lFF~Tl~~p~~ 44 (91)
T PF10961_consen 13 RSPWRLSRITDFFWGIINFIVLFFQTLFSPDS 44 (91)
T ss_pred CCCccHHHHHHHHHHHHHHHHHHHHHHhCCCc
Confidence 46774 556666666677777888877543
Done!