Query 007095
Match_columns 618
No_of_seqs 20 out of 22
Neff 2.7
Searched_HMMs 46136
Date Thu Mar 28 18:51:30 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/007095.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/007095hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR00261 traB pheromone shutd 97.6 0.00075 1.6E-08 71.8 13.0 105 52-173 3-116 (380)
2 PF13738 Pyr_redox_3: Pyridine 75.6 1.2 2.6E-05 40.5 0.9 26 415-440 164-189 (203)
3 KOG2860 Uncharacterized conser 67.7 3.7 8.1E-05 44.3 2.4 78 10-87 30-116 (359)
4 PRK05569 flavodoxin; Provision 53.7 45 0.00097 29.6 6.4 67 348-428 14-93 (141)
5 COG1916 Uncharacterized homolo 52.6 23 0.00051 38.9 5.2 109 53-173 12-124 (388)
6 PLN02172 flavin-containing mon 44.7 29 0.00063 37.9 4.5 27 141-169 15-41 (461)
7 TIGR01753 flav_short flavodoxi 44.0 63 0.0014 28.0 5.7 65 350-428 13-90 (140)
8 PRK06756 flavodoxin; Provision 43.2 60 0.0013 29.3 5.6 67 349-429 15-94 (148)
9 PRK07308 flavodoxin; Validated 43.1 65 0.0014 29.1 5.8 66 350-429 16-93 (146)
10 COG2072 TrkA Predicted flavopr 38.8 15 0.00031 39.8 1.1 25 416-440 173-197 (443)
11 PF01488 Shikimate_DH: Shikima 35.4 17 0.00036 33.0 0.8 25 416-440 10-34 (135)
12 COG0431 Predicted flavoprotein 35.0 41 0.0009 32.2 3.4 103 350-455 17-137 (184)
13 PRK06703 flavodoxin; Provision 32.2 1.2E+02 0.0026 27.5 5.8 67 349-429 15-93 (151)
14 TIGR03566 FMN_reduc_MsuE FMN r 28.1 1.3E+02 0.0027 28.2 5.3 80 348-429 15-112 (174)
15 PLN02441 cytokinin dehydrogena 24.8 74 0.0016 36.1 3.7 105 51-179 311-426 (525)
16 KOG4101 Cysteine-rich hydropho 24.7 57 0.0012 32.3 2.4 61 412-472 31-92 (175)
17 KOG2182 Hydrolytic enzymes of 23.2 48 0.001 37.8 1.8 24 526-550 158-181 (514)
18 PRK13556 azoreductase; Provisi 22.6 2.6E+02 0.0056 27.0 6.4 75 342-426 69-143 (208)
19 COG1881 Phospholipid-binding p 22.6 59 0.0013 32.1 2.1 19 34-52 55-73 (174)
20 PF03358 FMN_red: NADPH-depend 22.2 1.7E+02 0.0036 26.1 4.7 83 346-429 13-117 (152)
21 PF03810 IBN_N: Importin-beta 21.4 31 0.00066 27.4 -0.1 22 378-399 44-72 (77)
22 PF13241 NAD_binding_7: Putati 20.7 36 0.00077 29.5 0.2 25 416-440 5-29 (103)
23 PF03928 DUF336: Domain of unk 20.2 1.2E+02 0.0025 27.6 3.4 25 351-375 10-36 (132)
No 1
>TIGR00261 traB pheromone shutdown-related protein TraB. traB is a plasmid encoded gene that functions in the shutdown of the peptide sex pheromone cPD1 which is produced by the plasmid free recipient cell prior to conjugative transfer in Enterococcus faecalis. Once the recipient acquires the plasmid, production of cPD1 is shut down. The gene product may play another role in the other species in the family.
Probab=97.61 E-value=0.00075 Score=71.75 Aligned_cols=105 Identities=23% Similarity=0.287 Sum_probs=75.1
Q ss_pred CceEEEeecccccccccccHHHHHHhhCcCeEEEeec--cccchhhhhhhcCCCCCCCCCCChhhhhHhhhcccccchhh
Q 007095 52 QSVIYILCAQNLSERSAIDTECLIREVRPDAVVAQVG--VLSEVQCEESELGDNGNDPLPTSSFGVLKRCFVDKVNKETY 129 (618)
Q Consensus 52 qsviYiL~aqnLSErSa~Da~~LIr~irP~AVvaQv~--~~~~~~~EE~~l~~~~~~~VPtSsF~Vikrcf~dk~~k~~y 129 (618)
..-||++..--.|+.|+.+++++|++.|||+|.+-.+ -...+..++. -..+-++|||+- +- +
T Consensus 3 ~~~i~lvGTAHvS~~S~~eV~~~I~~~~PD~VaVELd~~R~~~l~~~~~---------~~~di~~vlk~g------~~-~ 66 (380)
T TIGR00261 3 EKTIYILGTAHVSKKSSEEVANLIEILKPDYIAVELDERRYHSLLNTKW---------RNLDIDKVLKQG------NA-F 66 (380)
T ss_pred CcEEEEEecccCCHHHHHHHHHHHHHhCCCEEEEeCCHHHHHHHhhhhh---------ccCCHHHHhhcC------ch-H
Confidence 4679999999999999999999999999999998775 1222222211 123466777631 11 0
Q ss_pred hhhhHHHH-------HHHHhccccchhhHHHhHHHHHhCCeeEEEeecccc
Q 007095 130 ENVAGNLV-------LREIFGIGFHGHLFAAKRVAKEVGSSFMVVESRIVR 173 (618)
Q Consensus 130 e~~Ag~~V-------LreIFGtgf~Gh~LAAKraA~evgS~Fl~lesp~~~ 173 (618)
....+.+ +-+-||+---..+.+|-++|+|.|+...+++-|..-
T Consensus 67 -~~l~~~~La~~q~~l~~~~gi~PG~Em~~Ai~~A~e~g~~v~LiDRdI~i 116 (380)
T TIGR00261 67 -FLIINLILANFQKKLGEEQGIKPGSEMKTAIEKAKKHGIPLILIDRDIET 116 (380)
T ss_pred -HHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcCCcEEEeCCCHhH
Confidence 1112222 337799999999999999999999999988877543
No 2
>PF13738 Pyr_redox_3: Pyridine nucleotide-disulphide oxidoreductase; PDB: 3D1C_A 4A9W_B 2YLX_A 2YM2_A 2YLW_A 2YLR_A 2YM1_A 2YLS_A 1W4X_A 2YLT_A ....
Probab=75.57 E-value=1.2 Score=40.46 Aligned_cols=26 Identities=46% Similarity=0.451 Sum_probs=17.9
Q ss_pred ccCCCCeEEEcCcceeeecccccccc
Q 007095 415 LLSSKPVVAVGAGASAVVGASSLSKV 440 (618)
Q Consensus 415 ~~~~kpvVaVGAGAtAvlGaSSLsk~ 440 (618)
-+.+|.|+|||+|.+|+-=+.-|.+.
T Consensus 164 ~~~~k~V~VVG~G~SA~d~a~~l~~~ 189 (203)
T PF13738_consen 164 DFKGKRVVVVGGGNSAVDIAYALAKA 189 (203)
T ss_dssp GCTTSEEEEE--SHHHHHHHHHHTTT
T ss_pred hcCCCcEEEEcChHHHHHHHHHHHhh
Confidence 46789999999999997655555444
No 3
>KOG2860 consensus Uncharacterized conserved protein, contains TraB domain [Signal transduction mechanisms]
Probab=67.67 E-value=3.7 Score=44.29 Aligned_cols=78 Identities=22% Similarity=0.268 Sum_probs=54.3
Q ss_pred hhcCCCCCCCccchHHHHHHhhhcCCC----ccccceeEEeecCCC-----CceEEEeecccccccccccHHHHHHhhCc
Q 007095 10 QNLWPFSFFKYDDLRASKELVNRLSIP----EHTKEFVFAIREPKS-----QSVIYILCAQNLSERSAIDTECLIREVRP 80 (618)
Q Consensus 10 qnlWp~s~~~~ddL~~S~~LV~kL~iP----E~TkqFVfA~R~p~s-----qsviYiL~aqnLSErSa~Da~~LIr~irP 80 (618)
+...||+-++.|+-+++++-+.++.=| -++.+=+.+.-||+= .+-||+..---+|+.|++|+..+||.++|
T Consensus 30 ~g~~~~~~~r~di~~~~~~a~a~~~~e~dla~~~~~~~~~~~d~~~~k~l~~s~i~lVgTah~S~Es~~~v~~virtv~p 109 (359)
T KOG2860|consen 30 CGGYHFGRKRADIFVPNANAVAVLKWETDLAIPPRNPVLSDSDEEWKKAILDSTIYLVGTAHFSKESQEDVSNVIRAVQP 109 (359)
T ss_pred cCCcccchhhhhccchhhhhhhccCCchhcccCCCCCcccCCcHHHHHhhccceeEEEEeeecCccccccHHHHhhccCc
Confidence 345677777888888877766655422 113332222222211 38999999999999999999999999999
Q ss_pred CeEEEee
Q 007095 81 DAVVAQV 87 (618)
Q Consensus 81 ~AVvaQv 87 (618)
|-|.+-.
T Consensus 110 d~V~vEl 116 (359)
T KOG2860|consen 110 DFVMVEL 116 (359)
T ss_pred ceeehhh
Confidence 9998754
No 4
>PRK05569 flavodoxin; Provisional
Probab=53.69 E-value=45 Score=29.60 Aligned_cols=67 Identities=15% Similarity=0.179 Sum_probs=46.3
Q ss_pred hhHHHHHHHHHHHHhcCcEEEEEecchh--hhhhh----------hcCCCC-ChhHHHhhhhhccccCCCCCCCcccccc
Q 007095 348 SSALLAQALQNQAKKFKTVVAVVDASCL--AGLRK----------HWNTPL-PHEVEDLVGQLVTSCGDDDENSNLNRKW 414 (618)
Q Consensus 348 s~aLlaQALqsQ~r~fktVVAVVDaS~l--AGiRk----------hWnTpv-P~Ev~~l~~~~~~~~d~d~~~~~~dkk~ 414 (618)
.-..+|+++.+++++-|--|-+.|.+.. .-+.. +|+... |++++++++.| .+.
T Consensus 14 nT~~iA~~i~~~~~~~g~~v~~~~~~~~~~~~~~~~d~iilgsPty~~~~~~~~~~~~~~~~l---------~~~----- 79 (141)
T PRK05569 14 NVEVLANTIADGAKEAGAEVTIKHVADAKVEDVLEADAVAFGSPSMDNNNIEQEEMAPFLDQF---------KLT----- 79 (141)
T ss_pred HHHHHHHHHHHHHHhCCCeEEEEECCcCCHHHHhhCCEEEEECCCcCCCcCChHHHHHHHHHh---------hcc-----
Confidence 3457899999999888866677776552 23333 555555 47899999887 111
Q ss_pred ccCCCCeEEEcCcc
Q 007095 415 LLSSKPVVAVGAGA 428 (618)
Q Consensus 415 ~~~~kpvVaVGAGA 428 (618)
.+.+|+++++|.++
T Consensus 80 ~~~~K~v~~f~t~g 93 (141)
T PRK05569 80 PNENKKCILFGSYG 93 (141)
T ss_pred CcCCCEEEEEeCCC
Confidence 15789999999854
No 5
>COG1916 Uncharacterized homolog of PrgY (pheromone shutdown protein) [Function unknown]
Probab=52.59 E-value=23 Score=38.93 Aligned_cols=109 Identities=23% Similarity=0.245 Sum_probs=72.0
Q ss_pred ceEEEeecccccccccccHHHHHHhhCcCeEEEeec--cccchhhhhhhcCCCCCCCCCCChhhhhHhhhccccc--chh
Q 007095 53 SVIYILCAQNLSERSAIDTECLIREVRPDAVVAQVG--VLSEVQCEESELGDNGNDPLPTSSFGVLKRCFVDKVN--KET 128 (618)
Q Consensus 53 sviYiL~aqnLSErSa~Da~~LIr~irP~AVvaQv~--~~~~~~~EE~~l~~~~~~~VPtSsF~Vikrcf~dk~~--k~~ 128 (618)
.-+||+..---|++|.-+++..|++.+||||-+-.| -+.++. ++-.+.+ +-=+|+|.- |.. --.
T Consensus 12 ~~v~iiGTAHVS~~SveeVrr~I~~~~PDaVAVELd~~R~~sLl-------~~~~~~l--dl~~vlk~G---k~~~~l~~ 79 (388)
T COG1916 12 KEVYILGTAHVSKDSVEEVRRIILEEKPDAVAVELDEARLLSLL-------GGSREEL--DLAQVLKEG---KAFFLLAG 79 (388)
T ss_pred ceEEEEeeeecCHhHHHHHHHHHHhcCCCeEEEEecHHHHHHHh-------cCCcccC--CHHHHHHcC---chHHHHHH
Confidence 479999999999999999999999999999999886 222222 2222111 122444320 000 001
Q ss_pred hhhhhHHHHHHHHhccccchhhHHHhHHHHHhCCeeEEEeecccc
Q 007095 129 YENVAGNLVLREIFGIGFHGHLFAAKRVAKEVGSSFMVVESRIVR 173 (618)
Q Consensus 129 ye~~Ag~~VLreIFGtgf~Gh~LAAKraA~evgS~Fl~lesp~~~ 173 (618)
|-=.+...-|-+-||+==--.+.+|-++|+|.|.--.+++-+..-
T Consensus 80 ~lLa~~Qrklg~~~Gv~PGsEmk~AIe~A~e~ga~V~lIDRdI~v 124 (388)
T COG1916 80 LLLAYFQRKLGKELGVKPGSEMKAAIEAARELGAPVALIDRDIGV 124 (388)
T ss_pred HHHHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCEEEecccHHH
Confidence 111122334556688888889999999999999998888776544
No 6
>PLN02172 flavin-containing monooxygenase FMO GS-OX
Probab=44.70 E-value=29 Score=37.85 Aligned_cols=27 Identities=30% Similarity=0.572 Sum_probs=19.4
Q ss_pred HhccccchhhHHHhHHHHHhCCeeEEEee
Q 007095 141 IFGIGFHGHLFAAKRVAKEVGSSFMVVES 169 (618)
Q Consensus 141 IFGtgf~Gh~LAAKraA~evgS~Fl~les 169 (618)
|-|-|.-|-. |||++.+ -|-.+.++|.
T Consensus 15 IIGAG~aGL~-aA~~l~~-~G~~v~vfE~ 41 (461)
T PLN02172 15 VIGAGAAGLV-AARELRR-EGHTVVVFER 41 (461)
T ss_pred EECCcHHHHH-HHHHHHh-cCCeEEEEec
Confidence 6688888743 6666655 5888888885
No 7
>TIGR01753 flav_short flavodoxin, short chain. Flavodoxins are small redox-active proteins with a flavin mononucleotide (FMN) prosthetic group. They can act in nitrogen fixation by nitrogenase, in sulfite reduction, and light-dependent NADP+ reduction in during photosynthesis, among other roles. This model describes the short chain type. Many of these are involved in sulfite reduction.
Probab=43.99 E-value=63 Score=28.02 Aligned_cols=65 Identities=18% Similarity=0.237 Sum_probs=43.5
Q ss_pred HHHHHHHHHHHHhcCcEEEEEecchhh--hh----------hhhcCCCCC-hhHHHhhhhhccccCCCCCCCcccccccc
Q 007095 350 ALLAQALQNQAKKFKTVVAVVDASCLA--GL----------RKHWNTPLP-HEVEDLVGQLVTSCGDDDENSNLNRKWLL 416 (618)
Q Consensus 350 aLlaQALqsQ~r~fktVVAVVDaS~lA--Gi----------RkhWnTpvP-~Ev~~l~~~~~~~~d~d~~~~~~dkk~~~ 416 (618)
-.+|++|.+.+++-|--|-+.|.+..- -| --||+.+.| +.++++.+.+ . ...+
T Consensus 13 ~~~A~~i~~~~~~~g~~v~~~~~~~~~~~~l~~~d~iilgspty~~g~~p~~~~~~f~~~l---------~-----~~~~ 78 (140)
T TIGR01753 13 EEMANIIAEGLKEAGAEVDLLEVADADAEDLLSYDAVLLGCSTWGDEDLEQDDFEPFFEEL---------E-----DIDL 78 (140)
T ss_pred HHHHHHHHHHHHhcCCeEEEEEcccCCHHHHhcCCEEEEEcCCCCCCCCCcchHHHHHHHh---------h-----hCCC
Confidence 468889999988877767777765431 11 124455676 6777777766 1 1135
Q ss_pred CCCCeEEEcCcc
Q 007095 417 SSKPVVAVGAGA 428 (618)
Q Consensus 417 ~~kpvVaVGAGA 428 (618)
.+|+++++|.|+
T Consensus 79 ~gk~~~vfgt~g 90 (140)
T TIGR01753 79 GGKKVALFGSGD 90 (140)
T ss_pred CCCEEEEEecCC
Confidence 789999999875
No 8
>PRK06756 flavodoxin; Provisional
Probab=43.16 E-value=60 Score=29.31 Aligned_cols=67 Identities=16% Similarity=0.216 Sum_probs=45.3
Q ss_pred hHHHHHHHHHHHHhcCcEEEEEecchh---hhhh----------hhcCCCCChhHHHhhhhhccccCCCCCCCccccccc
Q 007095 349 SALLAQALQNQAKKFKTVVAVVDASCL---AGLR----------KHWNTPLPHEVEDLVGQLVTSCGDDDENSNLNRKWL 415 (618)
Q Consensus 349 ~aLlaQALqsQ~r~fktVVAVVDaS~l---AGiR----------khWnTpvP~Ev~~l~~~~~~~~d~d~~~~~~dkk~~ 415 (618)
-..+|++|.+++++.|--|-++|.... .-+. -||+-.+|+.+.++++++ . +.-
T Consensus 15 Te~vA~~ia~~l~~~g~~v~~~~~~~~~~~~~~~~~d~vi~gspt~~~g~~p~~~~~fl~~l---------~-----~~~ 80 (148)
T PRK06756 15 TEEMADHIAGVIRETENEIEVIDIMDSPEASILEQYDGIILGAYTWGDGDLPDDFLDFYDAM---------D-----SID 80 (148)
T ss_pred HHHHHHHHHHHHhhcCCeEEEeehhccCCHHHHhcCCeEEEEeCCCCCCCCcHHHHHHHHHH---------h-----cCC
Confidence 346899999999988877767765432 2222 234466777788887776 1 112
Q ss_pred cCCCCeEEEcCcce
Q 007095 416 LSSKPVVAVGAGAS 429 (618)
Q Consensus 416 ~~~kpvVaVGAGAt 429 (618)
+.+||+.++|.|..
T Consensus 81 l~~k~~~~fgt~~~ 94 (148)
T PRK06756 81 LTGKKAAVFGSCDS 94 (148)
T ss_pred CCCCEEEEEeCCCC
Confidence 57899999999765
No 9
>PRK07308 flavodoxin; Validated
Probab=43.10 E-value=65 Score=29.10 Aligned_cols=66 Identities=21% Similarity=0.350 Sum_probs=43.1
Q ss_pred HHHHHHHHHHHHhcCcEEEEEecchhhh--hhh---------hc-CCCCChhHHHhhhhhccccCCCCCCCccccccccC
Q 007095 350 ALLAQALQNQAKKFKTVVAVVDASCLAG--LRK---------HW-NTPLPHEVEDLVGQLVTSCGDDDENSNLNRKWLLS 417 (618)
Q Consensus 350 aLlaQALqsQ~r~fktVVAVVDaS~lAG--iRk---------hW-nTpvP~Ev~~l~~~~~~~~d~d~~~~~~dkk~~~~ 417 (618)
.-+|++|..++++.|.-|-+.|.+.... |-+ .| +-.+|+++.++..++ .+ ..+.
T Consensus 16 e~iA~~ia~~l~~~g~~~~~~~~~~~~~~~l~~~d~vi~g~~t~g~G~~p~~~~~fl~~l---------~~-----~~l~ 81 (146)
T PRK07308 16 EEIADIVADKLRELGHDVDVDECTTVDASDFEDADIAIVATYTYGDGELPDEIVDFYEDL---------AD-----LDLS 81 (146)
T ss_pred HHHHHHHHHHHHhCCCceEEEecccCCHhHhccCCEEEEEeCccCCCCCCHHHHHHHHHH---------hc-----CCCC
Confidence 4588999999988887777777654321 111 12 245666666666665 11 1367
Q ss_pred CCCeEEEcCcce
Q 007095 418 SKPVVAVGAGAS 429 (618)
Q Consensus 418 ~kpvVaVGAGAt 429 (618)
+|++.++|.|-.
T Consensus 82 ~k~~~vfG~Gd~ 93 (146)
T PRK07308 82 GKIYGVVGSGDT 93 (146)
T ss_pred CCEEEEEeeCCC
Confidence 899999999864
No 10
>COG2072 TrkA Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]
Probab=38.80 E-value=15 Score=39.83 Aligned_cols=25 Identities=52% Similarity=0.616 Sum_probs=20.4
Q ss_pred cCCCCeEEEcCcceeeecccccccc
Q 007095 416 LSSKPVVAVGAGASAVVGASSLSKV 440 (618)
Q Consensus 416 ~~~kpvVaVGAGAtAvlGaSSLsk~ 440 (618)
+++|.||+||+|++|+==+..|.+.
T Consensus 173 ~~GKrV~VIG~GaSA~di~~~l~~~ 197 (443)
T COG2072 173 LRGKRVLVIGAGASAVDIAPELAEV 197 (443)
T ss_pred cCCCeEEEECCCccHHHHHHHHHhc
Confidence 4788999999999998666666665
No 11
>PF01488 Shikimate_DH: Shikimate / quinate 5-dehydrogenase; InterPro: IPR006151 This entry represents a domain found in shikimate and quinate dehydrogenases, as well as glutamyl-tRNA reductases. Shikimate 5-dehydrogenase (1.1.1.25 from EC) catalyses the conversion of shikimate to 5-dehydroshikimate [, ]. This reaction is part of the shikimate pathway which is involved in the biosynthesis of aromatic amino acids []. Quinate 5-dehydrogenase catalyses the conversion of quinate to 5-dehydroquinate. This reaction is part of the quinate pathway where quinic acid is exploited as a source of carbon in prokaryotes and microbial eukaryotes. Both the shikimate and quinate pathways share two common pathway metabolites, 3-dehydroquinate and dehydroshikimate. Glutamyl-tRNA reductase (1.2.1.70 from EC) catalyzes the first step of tetrapyrrole biosynthesis in plants, archaea and most bacteria. The dimeric enzyme has an unusual V-shaped architecture where each monomer consists of three domains linked by a long 'spinal' alpha-helix. The central catalytic domain specifically recognises the glutamate moiety of the substrate []. ; PDB: 2EV9_B 2CY0_B 1WXD_A 2D5C_A 1NVT_B 2EGG_A 3PWZ_A 3DOO_A 3DON_A 3FBT_C ....
Probab=35.38 E-value=17 Score=32.96 Aligned_cols=25 Identities=36% Similarity=0.543 Sum_probs=18.9
Q ss_pred cCCCCeEEEcCcceeeecccccccc
Q 007095 416 LSSKPVVAVGAGASAVVGASSLSKV 440 (618)
Q Consensus 416 ~~~kpvVaVGAGAtAvlGaSSLsk~ 440 (618)
+++|.++++|||++|=.-+..|.+.
T Consensus 10 l~~~~vlviGaGg~ar~v~~~L~~~ 34 (135)
T PF01488_consen 10 LKGKRVLVIGAGGAARAVAAALAAL 34 (135)
T ss_dssp GTTSEEEEESSSHHHHHHHHHHHHT
T ss_pred cCCCEEEEECCHHHHHHHHHHHHHc
Confidence 5889999999999876655554443
No 12
>COG0431 Predicted flavoprotein [General function prediction only]
Probab=35.01 E-value=41 Score=32.17 Aligned_cols=103 Identities=20% Similarity=0.175 Sum_probs=65.8
Q ss_pred HHHHHHHHHHHHhcCcEEEEEecchh--hhhhhhcCCCCChhHHHhhhhhccccCCCCC---------C-------Cccc
Q 007095 350 ALLAQALQNQAKKFKTVVAVVDASCL--AGLRKHWNTPLPHEVEDLVGQLVTSCGDDDE---------N-------SNLN 411 (618)
Q Consensus 350 aLlaQALqsQ~r~fktVVAVVDaS~l--AGiRkhWnTpvP~Ev~~l~~~~~~~~d~d~~---------~-------~~~d 411 (618)
-.|++.++.++...+.+..+.|=..+ .----++ ...|++++.+.+.+ ..+|+--- . |...
T Consensus 17 ~~la~~~~~~l~~~~~~~~~~~~~~lP~~~~d~~~-~~~p~~v~~~~~~i-~~aD~li~~tPeYn~s~pg~lKnaiD~l~ 94 (184)
T COG0431 17 RALAEAAAKLLPAGGEVEVEFDDLDLPLYNEDLEA-DGLPPAVQALREAI-AAADGLIIATPEYNGSYPGALKNAIDWLS 94 (184)
T ss_pred HHHHHHHHHhhcccCceEEEecccccCCCCcchhh-ccCCHHHHHHHHHH-HhCCEEEEECCccCCCCCHHHHHHHHhCC
Confidence 45788888888888877766632211 1111112 56777787777665 22221110 0 3333
Q ss_pred cccccCCCCeEEEcCcceeeecccccccccccccceeeeeeccc
Q 007095 412 RKWLLSSKPVVAVGAGASAVVGASSLSKVLPASTFMKVVSFKAP 455 (618)
Q Consensus 412 kk~~~~~kpvVaVGAGAtAvlGaSSLsk~v~aS~~~K~v~~K~P 455 (618)
+. .+.+||++++|.|.+..-|..-..++=+.-.++++.++..+
T Consensus 95 ~~-~~~~Kpv~~~~~s~g~~~~~~a~~~Lr~vl~~~~~~~~~~~ 137 (184)
T COG0431 95 RE-ALGGKPVLLLGTSGGGAGGLRAQNQLRPVLSFLGARVIPAG 137 (184)
T ss_pred Hh-HhCCCcEEEEecCCCchhHHHHHHHHHHHHHhcCceecccc
Confidence 33 77999999999999888888777777777777777777664
No 13
>PRK06703 flavodoxin; Provisional
Probab=32.16 E-value=1.2e+02 Score=27.45 Aligned_cols=67 Identities=25% Similarity=0.399 Sum_probs=40.7
Q ss_pred hHHHHHHHHHHHHhcCcEEEEEecchhh--hhhh---------hc-CCCCChhHHHhhhhhccccCCCCCCCcccccccc
Q 007095 349 SALLAQALQNQAKKFKTVVAVVDASCLA--GLRK---------HW-NTPLPHEVEDLVGQLVTSCGDDDENSNLNRKWLL 416 (618)
Q Consensus 349 ~aLlaQALqsQ~r~fktVVAVVDaS~lA--GiRk---------hW-nTpvP~Ev~~l~~~~~~~~d~d~~~~~~dkk~~~ 416 (618)
--.+|++|.+++++.|.-|-++|..... -+.+ -| +-..|+.+++++..+ +...+
T Consensus 15 T~~iA~~ia~~l~~~g~~v~~~~~~~~~~~~l~~~d~viigspt~~~g~~p~~~~~f~~~l--------------~~~~l 80 (151)
T PRK06703 15 TEDIADLIKVSLDAFDHEVVLQEMDGMDAEELLAYDGIILGSYTWGDGDLPYEAEDFHEDL--------------ENIDL 80 (151)
T ss_pred HHHHHHHHHHHHHhcCCceEEEehhhCCHHHHhcCCcEEEEECCCCCCcCcHHHHHHHHHH--------------hcCCC
Confidence 3468999999999988777777765422 1111 12 233444555555444 11235
Q ss_pred CCCCeEEEcCcce
Q 007095 417 SSKPVVAVGAGAS 429 (618)
Q Consensus 417 ~~kpvVaVGAGAt 429 (618)
.+|++.++|.|..
T Consensus 81 ~~k~~~vfg~g~~ 93 (151)
T PRK06703 81 SGKKVAVFGSGDT 93 (151)
T ss_pred CCCEEEEEccCCC
Confidence 6899999998743
No 14
>TIGR03566 FMN_reduc_MsuE FMN reductase, MsuE subfamily. Members of this protein family use NAD(P)H to reduce FMN and regenerate FMNH2. Members include the NADH-dependent enzyme MsuE from Pseudomonas aeruginosa, which serves as a partner to an FMNH2-dependent alkanesulfonate monooxygenase. The NADP-dependent enzyme from E. coli is outside the scope of this model.
Probab=28.07 E-value=1.3e+02 Score=28.21 Aligned_cols=80 Identities=24% Similarity=0.295 Sum_probs=45.0
Q ss_pred hhHHHHHHHHHH-HHhcCcEEEEEecchhhhh--hhhcCCCCChhHHHhhhhhccccCCCCC---------C----Cccc
Q 007095 348 SSALLAQALQNQ-AKKFKTVVAVVDASCLAGL--RKHWNTPLPHEVEDLVGQLVTSCGDDDE---------N----SNLN 411 (618)
Q Consensus 348 s~aLlaQALqsQ-~r~fktVVAVVDaS~lAGi--RkhWnTpvP~Ev~~l~~~~~~~~d~d~~---------~----~~~d 411 (618)
++.|+ +++.+. .++.|.-|-++|-..+.-- ...|+...|++++++..++ .++|+-=- + |..|
T Consensus 15 t~~l~-~~~~~~l~~~~g~ev~~idL~~~~~~~~~~~~~~~~~~~~~~~~~~i-~~AD~iIi~tP~Y~~s~~~~LKn~lD 92 (174)
T TIGR03566 15 TLALV-EALVAELAARLGISPRTIDLADLAPSLGGALWRSQLPPDAERILQAI-ESADLLVVGSPVYRGSYTGLFKHLFD 92 (174)
T ss_pred HHHHH-HHHHHHHHHhcCCeEEEEEhhhcChhhccccccCCCCHHHHHHHHHH-HHCCEEEEECCcCcCcCcHHHHHHHH
Confidence 34444 444455 4567777778885543110 1124445788888887775 33332100 0 3444
Q ss_pred cc--cccCCCCeEEEcCcce
Q 007095 412 RK--WLLSSKPVVAVGAGAS 429 (618)
Q Consensus 412 kk--~~~~~kpvVaVGAGAt 429 (618)
.- ..+.+||+++|++|+.
T Consensus 93 ~~~~~~l~~K~~~~v~~~g~ 112 (174)
T TIGR03566 93 LVDPNALIGKPVLLAATGGS 112 (174)
T ss_pred hcCHhHhCCCEEEEEEecCC
Confidence 32 3678999999988754
No 15
>PLN02441 cytokinin dehydrogenase
Probab=24.82 E-value=74 Score=36.13 Aligned_cols=105 Identities=21% Similarity=0.330 Sum_probs=73.2
Q ss_pred CCceEEEe-eccccccccc----ccHHHHHHhhC-cCeEEEeec-----cccchhhhhhhcCCCCCCCCCCChhhhhHhh
Q 007095 51 SQSVIYIL-CAQNLSERSA----IDTECLIREVR-PDAVVAQVG-----VLSEVQCEESELGDNGNDPLPTSSFGVLKRC 119 (618)
Q Consensus 51 sqsviYiL-~aqnLSErSa----~Da~~LIr~ir-P~AVvaQv~-----~~~~~~~EE~~l~~~~~~~VPtSsF~Vikrc 119 (618)
..+++|-| .+.|..+-.. .|.+.|++..+ +...+...| =++-++.+|..|...|.-.||--=+. |
T Consensus 311 ~~~~~y~le~~~~~~~~~~~~~~~~~~~ll~~L~~~~~~~~~~d~~y~~fl~rv~~~e~~lr~~G~W~~phPWln----l 386 (525)
T PLN02441 311 DGGVLYCLEVAKYYDEDTSDTVDQEVESLLKRLSFIPGLLFTTDVSYVDFLDRVHVEELKLRSKGLWEVPHPWLN----L 386 (525)
T ss_pred CCceEEEEEEEEeeCCCCccchhhHHHHHHhhcCCCCCCceecccCHHHHHHhhhhHHHHHhhcCCcCCCCchhh----e
Confidence 34678766 6778877766 68999999998 333333334 34566788888876666678888888 9
Q ss_pred hcccccchhhhhhhHHHHHHHHhccccchhhHHHhHHHHHhCCeeEEEeecccccCCCCC
Q 007095 120 FVDKVNKETYENVAGNLVLREIFGIGFHGHLFAAKRVAKEVGSSFMVVESRIVRNSIPDN 179 (618)
Q Consensus 120 f~dk~~k~~ye~~Ag~~VLreIFGtgf~Gh~LAAKraA~evgS~Fl~lesp~~~~~~~~~ 179 (618)
|+-++....|.. .|++.|-.-++.|++ |-+|..++=++.+
T Consensus 387 fvp~s~i~~f~~----~v~~~i~~~~~~G~~----------------liyP~~~~~~~~~ 426 (525)
T PLN02441 387 FVPKSRIADFDD----GVFKGILLDGTNGPI----------------LVYPLNRSKWDNR 426 (525)
T ss_pred eCcHHHHHHHHH----HHHhhcccccCCCeE----------------EEEecccccCCCC
Confidence 999887777743 566666655555654 5688888766444
No 16
>KOG4101 consensus Cysteine-rich hydrophobic proteins [General function prediction only]
Probab=24.68 E-value=57 Score=32.32 Aligned_cols=61 Identities=23% Similarity=0.262 Sum_probs=39.3
Q ss_pred cccccCCCCeEEEcCcceeeecccccccc-cccccceeeeeeccchhhHHHHHhhhhhheee
Q 007095 412 RKWLLSSKPVVAVGAGASAVVGASSLSKV-LPASTFMKVVSFKAPASLKLIMTQTQKAVAIA 472 (618)
Q Consensus 412 kk~~~~~kpvVaVGAGAtAvlGaSSLsk~-v~aS~~~K~v~~K~P~~lKl~l~q~qk~~ai~ 472 (618)
.......-|||+=|||-..|+|.|+--.+ .|-.-.-|+++=..-+.+.-.=.-++|++.+.
T Consensus 31 ~~~~y~pePvviRG~GniTVFGlsnrFntEfP~~Ltg~vAPEEfkati~RvNsvLKk~lpvn 92 (175)
T KOG4101|consen 31 QLPIYIPEPVVIRGAGNITVFGLSNRFNTEFPSELTGKVAPEEFKATIGRVNSVLKKHLPVN 92 (175)
T ss_pred hccccCCCCeEEeccCceEEEeccccccccCChhhccccCHHHHHHHHHHHHHHHHhcCCch
Confidence 33444778999999999999999975555 55555556654333233333334467777765
No 17
>KOG2182 consensus Hydrolytic enzymes of the alpha/beta hydrolase fold [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=23.15 E-value=48 Score=37.84 Aligned_cols=24 Identities=29% Similarity=0.383 Sum_probs=16.0
Q ss_pred HHHHHHhhcCCccccccchhcccch
Q 007095 526 FYEIMRKRRVKPIGVLPWATFGCSV 550 (618)
Q Consensus 526 FYeiMrKR~~~p~g~~PWatFG~Si 550 (618)
|-+.|-.+-+..-+ -||+|||||-
T Consensus 158 fI~~~n~k~n~~~~-~~WitFGgSY 181 (514)
T KOG2182|consen 158 FIKAMNAKFNFSDD-SKWITFGGSY 181 (514)
T ss_pred HHHHHHhhcCCCCC-CCeEEECCCc
Confidence 34455555555444 7999999984
No 18
>PRK13556 azoreductase; Provisional
Probab=22.60 E-value=2.6e+02 Score=27.01 Aligned_cols=75 Identities=20% Similarity=0.193 Sum_probs=54.4
Q ss_pred CcccchhhHHHHHHHHHHHHhcCcEEEEEecchhhhhhhhcCCCCChhHHHhhhhhccccCCCCCCCccccccccCCCCe
Q 007095 342 LALEDKSSALLAQALQNQAKKFKTVVAVVDASCLAGLRKHWNTPLPHEVEDLVGQLVTSCGDDDENSNLNRKWLLSSKPV 421 (618)
Q Consensus 342 Lp~edKs~aLlaQALqsQ~r~fktVVAVVDaS~lAGiRkhWnTpvP~Ev~~l~~~~~~~~d~d~~~~~~dkk~~~~~kpv 421 (618)
++.++|..--.++.++.+.++--.||-+. =-||--+|.-.|..++.++.....=+.++.+ +.-++.+|++
T Consensus 69 ~~~~~~~~~~~~~~~~~~l~~AD~iVi~~---------P~yn~~~Pa~LK~~iD~v~~~g~tf~~~~~g-~~gll~~K~~ 138 (208)
T PRK13556 69 LTEEEAKAVAVADKYLNQFLEADKVVFAF---------PLWNFTIPAVLHTYIDYLNRAGKTFKYTPEG-PVGLIGDKKV 138 (208)
T ss_pred CCHHHHHHHHHHHHHHHHHHHCCEEEEec---------cccccCCcHHHHHHHHHHhcCCceeecCCCC-CccccCCCEE
Confidence 55666766667888999999998888764 3599999999999999998742211111111 1357889999
Q ss_pred EEEcC
Q 007095 422 VAVGA 426 (618)
Q Consensus 422 VaVGA 426 (618)
+++.+
T Consensus 139 ~vi~t 143 (208)
T PRK13556 139 ALLNA 143 (208)
T ss_pred EEEEe
Confidence 99988
No 19
>COG1881 Phospholipid-binding protein [General function prediction only]
Probab=22.55 E-value=59 Score=32.05 Aligned_cols=19 Identities=32% Similarity=0.761 Sum_probs=17.6
Q ss_pred CCCccccceeEEeecCCCC
Q 007095 34 SIPEHTKEFVFAIREPKSQ 52 (618)
Q Consensus 34 ~iPE~TkqFVfA~R~p~sq 52 (618)
.+|+.||.|++.+-|||--
T Consensus 55 ~~P~~tkS~AL~v~DpDAP 73 (174)
T COG1881 55 GVPEGTKSFALTVDDPDAP 73 (174)
T ss_pred CCCCCCeeEEEEEECCCCC
Confidence 4899999999999999985
No 20
>PF03358 FMN_red: NADPH-dependent FMN reductase; InterPro: IPR005025 NADPH-dependent FMN reductase (1.5.1.29 from EC) reduces FMN and also reduces riboflavin and FAD, although more slowly. Members of this entry catalyse the reaction NAD(P)H + FMN = NAD(P)(+) + FMNH(2).; PDB: 3SVL_B 3GFS_F 3GFQ_A 1NNI_1 2GSW_B 3GFR_D 1T0I_B 3D7N_A 2R97_A 3B6K_A ....
Probab=22.18 E-value=1.7e+02 Score=26.12 Aligned_cols=83 Identities=20% Similarity=0.316 Sum_probs=53.5
Q ss_pred chhhHHHHHHHHHHHHhcCcEEEEEecchh--hhhhhhc--CCCCChhHHHhhhhhccccCCC--------CC-C----C
Q 007095 346 DKSSALLAQALQNQAKKFKTVVAVVDASCL--AGLRKHW--NTPLPHEVEDLVGQLVTSCGDD--------DE-N----S 408 (618)
Q Consensus 346 dKs~aLlaQALqsQ~r~fktVVAVVDaS~l--AGiRkhW--nTpvP~Ev~~l~~~~~~~~d~d--------~~-~----~ 408 (618)
+-....+++++.+++++.|--|=++|-.-. -....+| ....++++.++..++ .++|+- +. . +
T Consensus 13 ~~~t~~l~~~~~~~l~~~g~e~~~i~l~~~~~p~~~~~~~~~~~~~d~~~~~~~~l-~~aD~iI~~sP~y~~~~s~~lK~ 91 (152)
T PF03358_consen 13 NSNTRKLAEAVAEQLEEAGAEVEVIDLADYPLPCCDGDFECPCYIPDDVQELYDKL-KEADGIIFASPVYNGSVSGQLKN 91 (152)
T ss_dssp TSHHHHHHHHHHHHHHHTTEEEEEEECTTSHCHHHHHHHHHTGCTSHHHHHHHHHH-HHSSEEEEEEEEBTTBE-HHHHH
T ss_pred CCHHHHHHHHHHHHHHHcCCEEEEEeccccchhhcccccccccCCcHHHHHHHhce-ecCCeEEEeecEEcCcCChhhhH
Confidence 345668999999999999988999997764 2222233 245677887777666 233310 00 0 3
Q ss_pred ccc-----cccccCCCCeEEEcCcce
Q 007095 409 NLN-----RKWLLSSKPVVAVGAGAS 429 (618)
Q Consensus 409 ~~d-----kk~~~~~kpvVaVGAGAt 429 (618)
..| ..+.+.+||+.+++.|++
T Consensus 92 ~lD~~~~~~~~~~~~K~~~~i~~~g~ 117 (152)
T PF03358_consen 92 FLDRLSCWFRRALRGKPVAIIAVGGG 117 (152)
T ss_dssp HHHTHHHTHTTTTTTSEEEEEEEESS
T ss_pred HHHHhccccccccCCCEEEEEEEecC
Confidence 333 356889999999865543
No 21
>PF03810 IBN_N: Importin-beta N-terminal domain; InterPro: IPR001494 Karyopherins are a group of proteins involved in transporting molecules through the pores of the nuclear envelope. Karyopherins, which may act as importins or exportins, are part of the Importin-beta super-family, which all share a similar three-dimensional structure. Members of the importin-beta (karyopherin-beta) family can bind and transport cargo by themselves, or can form heterodimers with importin-alpha. As part of a heterodimer, importin-beta mediates interactions with the pore complex, while importin-alpha acts as an adaptor protein to bind the nuclear localisation signal (NLS) on the cargo through the classical NLS import of proteins. Importin-beta is a helicoidal molecule constructed from 19 HEAT repeats. Many nuclear pore proteins contain FG sequence repeats that can bind to HEAT repeats within importins [, ], which is important for importin-beta mediated transport. Ran GTPase helps to control the unidirectional transfer of cargo. The cytoplasm contains primarily RanGDP and the nucleus RanGTP through the actions of RanGAP and RanGEF, respectively. In the nucleus, RanGTP binds to importin-beta within the importin/cargo complex, causing a conformational change in importin-beta that releases it from importin-alpha-bound cargo. As a result, the N-terminal auto-inhibitory region on importin-alpha is free to loop back and bind to the major NLS-binding site, causing the cargo to be released []. There are additional release factors as well. This entry represents the N-terminal domain of karyopherins that is important for the binding of the Ran protein []. More information about these proteins can be found at Protein of the Month: Importins [].; GO: 0008565 protein transporter activity, 0006886 intracellular protein transport; PDB: 3NC1_A 3NBY_D 3NBZ_D 3NC0_A 3GJX_D 1IBR_D 1QGR_A 3LWW_A 1F59_A 2Q5D_A ....
Probab=21.37 E-value=31 Score=27.44 Aligned_cols=22 Identities=23% Similarity=0.637 Sum_probs=18.3
Q ss_pred hhhhcCC-------CCChhHHHhhhhhcc
Q 007095 378 LRKHWNT-------PLPHEVEDLVGQLVT 399 (618)
Q Consensus 378 iRkhWnT-------pvP~Ev~~l~~~~~~ 399 (618)
|++||+. ++|+|.++.+.+.+.
T Consensus 44 I~~~W~~~~~~~~~~~~~~~k~~Ik~~ll 72 (77)
T PF03810_consen 44 IKKNWSPSKQKGWSQLPEEEKEQIKSQLL 72 (77)
T ss_dssp HHHSGGHHHHHHHHGSSHHHHHHHHHHHH
T ss_pred HHHcCchhhccCCCCCCHHHHHHHHHHHH
Confidence 7889984 899999999887754
No 22
>PF13241 NAD_binding_7: Putative NAD(P)-binding; PDB: 3DFZ_B 1PJT_A 1PJS_A 1PJQ_A 1KYQ_B.
Probab=20.69 E-value=36 Score=29.55 Aligned_cols=25 Identities=36% Similarity=0.417 Sum_probs=18.5
Q ss_pred cCCCCeEEEcCcceeeecccccccc
Q 007095 416 LSSKPVVAVGAGASAVVGASSLSKV 440 (618)
Q Consensus 416 ~~~kpvVaVGAGAtAvlGaSSLsk~ 440 (618)
+++|+|++||+|..|.--+-.|-+.
T Consensus 5 l~~~~vlVvGgG~va~~k~~~Ll~~ 29 (103)
T PF13241_consen 5 LKGKRVLVVGGGPVAARKARLLLEA 29 (103)
T ss_dssp -TT-EEEEEEESHHHHHHHHHHCCC
T ss_pred cCCCEEEEECCCHHHHHHHHHHHhC
Confidence 4789999999999888766665554
No 23
>PF03928 DUF336: Domain of unknown function (DUF336); InterPro: IPR005624 This entry contains uncharacterised proteins, including GlcG P45504 from SWISSPROT. The alignment contains many conserved motifs that are suggestive of cofactor binding and enzymatic activity.; PDB: 2A2L_D 3FPW_A 3FPV_E.
Probab=20.19 E-value=1.2e+02 Score=27.60 Aligned_cols=25 Identities=32% Similarity=0.302 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHhcC--cEEEEEecchh
Q 007095 351 LLAQALQNQAKKFK--TVVAVVDASCL 375 (618)
Q Consensus 351 LlaQALqsQ~r~fk--tVVAVVDaS~l 375 (618)
.++++.++.+++.| ..|||||.++.
T Consensus 10 ~l~~~a~~~a~~~g~~v~iaVvd~~G~ 36 (132)
T PF03928_consen 10 KLGDAAVEEARERGLPVSIAVVDAGGH 36 (132)
T ss_dssp HHHHHHHHHHHHTT---EEEEEETTS-
T ss_pred HHHHHHHHHHHHhCCCeEEEEEECCCC
Confidence 46788899999999 88999999864
Done!