Query psy12413
Match_columns 192
No_of_seqs 109 out of 376
Neff 6.1
Searched_HMMs 46136
Date Fri Aug 16 18:37:00 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12413.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/12413hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2468|consensus 100.0 2.6E-46 5.7E-51 337.1 12.2 171 3-173 273-445 (510)
2 COG0170 SEC59 Dolichol kinase 99.6 4.6E-15 9.9E-20 124.9 9.8 126 40-173 17-150 (216)
3 PF01148 CTP_transf_1: Cytidyl 99.0 2.7E-09 5.8E-14 89.5 10.2 36 138-173 130-167 (259)
4 KOG4453|consensus 98.7 6.4E-08 1.4E-12 82.1 7.8 135 36-183 60-197 (269)
5 COG0575 CdsA CDP-diglyceride s 91.4 0.15 3.3E-06 44.0 2.6 33 141-173 137-172 (265)
6 PRK11624 cdsA CDP-diglyceride 90.1 0.17 3.7E-06 44.4 1.8 33 141-173 155-190 (285)
7 PLN02953 phosphatidate cytidyl 80.7 1.5 3.3E-05 40.5 3.0 30 144-173 275-306 (403)
8 KOG1440|consensus 79.6 53 0.0012 30.7 12.6 63 109-173 193-257 (432)
9 PLN02594 phosphatidate cytidyl 76.0 1.6 3.4E-05 39.6 1.6 33 141-173 128-162 (342)
10 PF01554 MatE: MatE; InterPro 54.2 17 0.00037 27.4 3.4 32 141-172 40-71 (162)
11 COG1836 Predicted membrane pro 38.6 40 0.00088 29.3 3.6 28 138-165 121-148 (247)
12 PF05767 Pox_A14: Poxvirus vir 34.3 97 0.0021 23.0 4.5 58 110-167 15-74 (92)
13 PF01940 DUF92: Integral membr 33.8 2.7E+02 0.0058 23.7 7.9 31 135-165 104-134 (226)
14 PRK00816 rnfD electron transpo 31.2 4.1E+02 0.0089 24.2 9.6 32 117-159 78-109 (350)
15 TIGR01946 rnfD electron transp 22.4 5.8E+02 0.013 23.0 9.6 32 117-159 72-103 (327)
16 TIGR00297 conserved hypothetic 21.0 1.3E+02 0.0027 26.0 3.6 28 137-164 111-138 (237)
17 PF03116 NQR2_RnfD_RnfE: NQR2, 20.6 6.1E+02 0.013 22.5 9.0 32 117-159 76-107 (313)
18 PF14256 YwiC: YwiC-like prote 20.5 4E+02 0.0088 20.5 10.4 62 8-70 24-88 (129)
No 1
>KOG2468|consensus
Probab=100.00 E-value=2.6e-46 Score=337.06 Aligned_cols=171 Identities=41% Similarity=0.790 Sum_probs=163.4
Q ss_pred eeeeechhHHHHHHHHHHHHHHHHHHHHHHhcccCCCc-chhHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHH
Q psy12413 3 VYINILHSLVLLVIYWVACVLIAIAVIAFQISSNQKAT-TSLRKYFHLLAVAVYIPGLVFNRCLLYLASGVVLALFLVLE 81 (192)
Q Consensus 3 ~~i~~~~~r~~li~~W~~~~~~~i~~v~~~~~~~~~~~-~~~RK~fHll~~lif~p~~~~~~~~l~l~l~~~l~ifl~lE 81 (192)
+||+++.+|+.+++||..++.+++..+.|++.++.+.+ +..||+||++++++|+|+..+||.++.+++++++.+|+++|
T Consensus 273 qfif~~~~Rl~ili~W~lllvls~~svl~q~~sSs~~~~t~~RK~~HlliV~l~iP~li~d~~fL~lA~s~~LavFl~lE 352 (510)
T KOG2468|consen 273 QFIFSSLTRLKILIYWSLLLVLSILSVLYQIDSSSKLNETTSRKYFHLLIVLLYIPGLIFDPNFLYLAFSGALAVFLFLE 352 (510)
T ss_pred HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHccchhhhhHHHHHHHHHHHHHHHHhhHHhcCchhHHHHHhhHHHHHHHHH
Confidence 58899999999999999999999888899987555544 78999999999999999999999999999999999999999
Q ss_pred HHHhhCCCchHHHHHhhchhccccCCC-ccchhHHHHHHHHHHHHhcCCCCCCchhHHHHHHHHhhhhhhhhhHhhhhcc
Q psy12413 82 IMRILCLPPLSDVLNQGFHMYVDEKDS-TVALTPLYLLTGCSLPLWLSPGPLDQADMLSLSAGILSIGVGDCFASMVGFK 160 (192)
Q Consensus 82 ~lR~~~~~~~~~~l~~~~~~f~derd~-~l~lt~iyLllG~~ipl~l~~~~~~~~~~~~~~~GIl~lgvGDs~AalVG~~ 160 (192)
++|..++||+++.+|++++.|.||||+ ++++||+||++||++|+|+.+.+|++.+.+..++|++.+|+||+|||+||+|
T Consensus 353 ~IR~~ri~PlG~~l~~fl~~F~DeRDsGpLIiSh~yLLiGcslPIWms~~p~~~~ral~~laGiLalGiGDTmASiiG~r 432 (510)
T KOG2468|consen 353 YIRFLRIPPLGSALHLFLSRFTDERDSGPLIISHFYLLIGCSLPIWMSNSPCGGDRALALLAGILALGIGDTMASIIGKR 432 (510)
T ss_pred HHHHhcCCCchHHHHHHHHHhcccccCCceeHHHHHHHHhcccchhccCCCCCchhhhhhhhhheeeccchHHHHHHhhh
Confidence 999999999999999999999999999 9999999999999999999999998888888999999999999999999999
Q ss_pred cCccccCCCceEE
Q psy12413 161 YGKHKWKSKTIWI 173 (192)
Q Consensus 161 fGk~r~~g~~Ks~ 173 (192)
|||+||+|+|||+
T Consensus 433 ~G~~RW~~TkKTl 445 (510)
T KOG2468|consen 433 YGRIRWSGTKKTL 445 (510)
T ss_pred hcceecCCCccee
Confidence 9999999999996
No 2
>COG0170 SEC59 Dolichol kinase [Lipid metabolism]
Probab=99.60 E-value=4.6e-15 Score=124.92 Aligned_cols=126 Identities=23% Similarity=0.367 Sum_probs=83.5
Q ss_pred cchhHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHH-HHHHHhhCCC---chHHHHHhhchhccccCCC--ccchh
Q psy12413 40 TTSLRKYFHLLAVAVYIPGLVFNRCLLYLASGVVLALFLV-LEIMRILCLP---PLSDVLNQGFHMYVDEKDS--TVALT 113 (192)
Q Consensus 40 ~~~~RK~fHll~~lif~p~~~~~~~~l~l~l~~~l~ifl~-lE~lR~~~~~---~~~~~l~~~~~~f~derd~--~l~lt 113 (192)
..+.||.+|+.....+......++...........++..+ .|+.|....+ .....++++...+.+++|+ + ...
T Consensus 17 ~~~~rk~~hi~~~~l~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~r~~e~~~~-~~g 95 (216)
T COG0170 17 LEVRRKLLHISGGLLFLLYILRDKFAIILFLLILLIILLLEFELFRLLIPGLEGKVTLLLSELLSLIEREREKNGP-GLG 95 (216)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHHHHHHhhccchhhHHHHHHHHHHHHHhhHHHhcCC-CcC
Confidence 3578999999998776655555544333333333333333 7887775533 1233556666667777777 4 444
Q ss_pred HHHHHHHHHHHH-hcCCCCCCchhHHHHHHHHhhhhhhhhhHhhhhcccCccccC-CCceEE
Q psy12413 114 PLYLLTGCSLPL-WLSPGPLDQADMLSLSAGILSIGVGDCFASMVGFKYGKHKWK-SKTIWI 173 (192)
Q Consensus 114 ~iyLllG~~ipl-~l~~~~~~~~~~~~~~~GIl~lgvGDs~AalVG~~fGk~r~~-g~~Ks~ 173 (192)
..++..+..+.. ++++. -.+.+|++++++||++||+||+|||||+++ +++||+
T Consensus 96 ~~~~~~~~~i~~~~lf~~-------~~~~~~I~~l~~GD~lAsiiG~~~G~~~~~~~~~KSl 150 (216)
T COG0170 96 GIIYFIGGGLLASLLFPI-------EVAIAGILVLALGDGLASIIGKRYGRHKRILGNGKSL 150 (216)
T ss_pred cHHHHHHHHHHHHHHccH-------HHHHHHHHHHHHhhHHHHHhCcccCccccccCCCCch
Confidence 455545555555 55543 245899999999999999999999999666 678996
No 3
>PF01148 CTP_transf_1: Cytidylyltransferase family; InterPro: IPR000374 Phosphatidate cytidylyltransferase (2.7.7.41 from EC) [, , ] (also known as CDP- diacylglycerol synthase) (CDS) is the enzyme that catalyzes the synthesis of CDP-diacylglycerol from CTP and phosphatidate (PA): CTP + phosphatidate = diphosphate + CDP-diacylglycerol CDP-diacylglycerol is an important branch point intermediate in both prokaryotic and eukaryotic organisms. CDS is a membrane-bound enzyme.; GO: 0016772 transferase activity, transferring phosphorus-containing groups, 0016020 membrane
Probab=99.00 E-value=2.7e-09 Score=89.48 Aligned_cols=36 Identities=39% Similarity=0.528 Sum_probs=31.7
Q ss_pred HHHHHHHhhhhhhhhhHhhhhcccCccccC--CCceEE
Q psy12413 138 LSLSAGILSIGVGDCFASMVGFKYGKHKWK--SKTIWI 173 (192)
Q Consensus 138 ~~~~~GIl~lgvGDs~AalVG~~fGk~r~~--g~~Ks~ 173 (192)
.....+++++++||++|+++|++||||++| ++|||+
T Consensus 130 ~~~~~~i~~~~~gD~~A~l~G~~fGk~~~~~~sp~KT~ 167 (259)
T PF01148_consen 130 PLALIGILILGIGDSFAYLVGRRFGKHLAPKISPKKTW 167 (259)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCCcCCCCCCCCCH
Confidence 455899999999999999999999999766 468996
No 4
>KOG4453|consensus
Probab=98.68 E-value=6.4e-08 Score=82.10 Aligned_cols=135 Identities=17% Similarity=0.142 Sum_probs=83.6
Q ss_pred cCCCcchhHHHHHHHHHHH--HhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhCCCchHHHHHhhchhccccCCCccchh
Q psy12413 36 NQKATTSLRKYFHLLAVAV--YIPGLVFNRCLLYLASGVVLALFLVLEIMRILCLPPLSDVLNQGFHMYVDEKDSTVALT 113 (192)
Q Consensus 36 ~~~~~~~~RK~fHll~~li--f~p~~~~~~~~l~l~l~~~l~ifl~lE~lR~~~~~~~~~~l~~~~~~f~derd~~l~lt 113 (192)
|+..+++-||.+|-..... ..-+-..+.....-.+--.++-......+|.+ +|.+++.+.+-+....||.+...-=.
T Consensus 60 ns~kheiprkv~hssigf~~l~l~g~g~kr~~i~~~Li~kfi~ifigdlirln-WP~FsrLy~r~lg~lmre~erhl~nG 138 (269)
T KOG4453|consen 60 NSLKHEIPRKVAHSSIGFALLLLFGSGTKRNVIQQSLIRKFIHIFIGDLIRLN-WPIFSRLYIRGLGILMREVERHLLNG 138 (269)
T ss_pred hhhhhhhchhHhhhhHHHHHHHHHhcccchhhhhHHHHHHHHHHHHhHHHHhc-cHHHHHHHHhcccccchHHHHHHhcc
Confidence 4555678999999776521 11111111222222222223344455677774 47777777777777777766522224
Q ss_pred HHHHHHHHHHHHhcCCCCCCchhHHHHHHHHhhhhhhhhhHhhhhcccCccccCC-CceEEEecccccccc
Q psy12413 114 PLYLLTGCSLPLWLSPGPLDQADMLSLSAGILSIGVGDCFASMVGFKYGKHKWKS-KTIWIILLPKCGDLD 183 (192)
Q Consensus 114 ~iyLllG~~ipl~l~~~~~~~~~~~~~~~GIl~lgvGDs~AalVG~~fGk~r~~g-~~Ks~~~~~~~~~~~ 183 (192)
++|..+|.....-++.+.. +...+..+..-|++|+.||||||+.+.|. .+||+ -|++.
T Consensus 139 vLfYvLgl~fs~~ff~kes-------pi~s~~LlswcDt~AdtvGRKfG~~tpk~aknKSl-----AGSIg 197 (269)
T KOG4453|consen 139 VLFYVLGLLFSAVFFWKES-------PIGSISLLSWCDTIADTVGRKFGSTTPKYAKNKSL-----AGSIG 197 (269)
T ss_pred hHHHHHHHHHHhhcccccc-------HHHHHHHHHHhhhHHHHHhhhccccCCCcCCCccc-----cchHH
Confidence 7899999999888887542 12233333344999999999999999995 56997 66654
No 5
>COG0575 CdsA CDP-diglyceride synthetase [Lipid metabolism]
Probab=91.40 E-value=0.15 Score=44.01 Aligned_cols=33 Identities=30% Similarity=0.260 Sum_probs=25.6
Q ss_pred HHHHhhhhhhhhhHhhhhcccCccc-cCC--CceEE
Q psy12413 141 SAGILSIGVGDCFASMVGFKYGKHK-WKS--KTIWI 173 (192)
Q Consensus 141 ~~GIl~lgvGDs~AalVG~~fGk~r-~~g--~~Ks~ 173 (192)
..-...+-.+|+.|..+||++|||| .|. .+||+
T Consensus 137 l~l~~~vw~~Di~Ayf~Gr~fGk~kl~p~iSP~KT~ 172 (265)
T COG0575 137 LLLFLGVWAGDIGAYFVGRRFGKHKLAPKISPKKTW 172 (265)
T ss_pred HHHHHHHHHHhhhHHHHHHHcCCCCCCCcCCCCCch
Confidence 3444456689999999999999998 663 46885
No 6
>PRK11624 cdsA CDP-diglyceride synthase; Provisional
Probab=90.08 E-value=0.17 Score=44.39 Aligned_cols=33 Identities=24% Similarity=0.117 Sum_probs=25.8
Q ss_pred HHHHhhhhhhhhhHhhhhcccCcccc-CC--CceEE
Q psy12413 141 SAGILSIGVGDCFASMVGFKYGKHKW-KS--KTIWI 173 (192)
Q Consensus 141 ~~GIl~lgvGDs~AalVG~~fGk~r~-~g--~~Ks~ 173 (192)
..-++++-..|+.|=.+||+|||||. |. .|||+
T Consensus 155 l~l~~~vw~sDt~AYf~Gr~fGk~KL~P~ISPkKTw 190 (285)
T PRK11624 155 LYVMILVWGADSGAYMFGKLFGKHKLAPKVSPGKTW 190 (285)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCCCCCCcCCCCCch
Confidence 34445566899999999999999994 53 47985
No 7
>PLN02953 phosphatidate cytidylyltransferase
Probab=80.69 E-value=1.5 Score=40.46 Aligned_cols=30 Identities=20% Similarity=0.194 Sum_probs=24.1
Q ss_pred HhhhhhhhhhHhhhhcccCccccCC--CceEE
Q psy12413 144 ILSIGVGDCFASMVGFKYGKHKWKS--KTIWI 173 (192)
Q Consensus 144 Il~lgvGDs~AalVG~~fGk~r~~g--~~Ks~ 173 (192)
++++-..|..|=++|++|||||.+. .|||+
T Consensus 275 ~~~vw~~Di~AY~~G~~fGk~kl~~ISPkKTw 306 (403)
T PLN02953 275 FSGVIATDTFAFLGGKAFGRTPLTSISPKKTW 306 (403)
T ss_pred HHHHHHHHHHHHHHHHHhCCCCCCcCCCCCee
Confidence 3344468999999999999999873 46886
No 8
>KOG1440|consensus
Probab=79.56 E-value=53 Score=30.74 Aligned_cols=63 Identities=17% Similarity=0.090 Sum_probs=41.5
Q ss_pred ccchhHHHHHHHHHHHHhcCCCCCCchhHHHHHHHHhhhhhhhhhHhhhhcccCccccCC--CceEE
Q psy12413 109 TVALTPLYLLTGCSLPLWLSPGPLDQADMLSLSAGILSIGVGDCFASMVGFKYGKHKWKS--KTIWI 173 (192)
Q Consensus 109 ~l~lt~iyLllG~~ipl~l~~~~~~~~~~~~~~~GIl~lgvGDs~AalVG~~fGk~r~~g--~~Ks~ 173 (192)
.+..||..+++-++...+.-.+..+...|- ..-+..+-.+|=+|=++|.+|||+..-+ -|||+
T Consensus 193 ~fawtH~sll~Vv~qs~l~i~N~feG~fWF--l~P~~lvicnDi~AY~~Gf~fGktPLiklSPKKTw 257 (432)
T KOG1440|consen 193 LFAWTHMSLLLVVTQSHLVIQNLFEGLFWF--LVPAGLVICNDIFAYLFGFFFGKTPLIKLSPKKTW 257 (432)
T ss_pred hHHHHHHHHHHHHHHHHHHHhcccchHHHH--HHHhHhheeCchHHHHHhhhhcCCcccccCCCCcc
Confidence 566788887777766665544332222222 2333445689999999999999998663 57885
No 9
>PLN02594 phosphatidate cytidylyltransferase
Probab=75.99 E-value=1.6 Score=39.63 Aligned_cols=33 Identities=18% Similarity=0.125 Sum_probs=26.0
Q ss_pred HHHHhhhhhhhhhHhhhhcccCccccCC--CceEE
Q psy12413 141 SAGILSIGVGDCFASMVGFKYGKHKWKS--KTIWI 173 (192)
Q Consensus 141 ~~GIl~lgvGDs~AalVG~~fGk~r~~g--~~Ks~ 173 (192)
..-+..+-..|.+|=++|++|||||... .|||+
T Consensus 128 ~l~~~lV~~nDi~AY~~G~~fGk~kL~~iSPkKTw 162 (342)
T PLN02594 128 LLPASLIVINDIAAYLFGFFFGRTPLIKLSPKKTW 162 (342)
T ss_pred HHHHHHHHHHhHHHHHHHHHhcCCCCCccCCCCch
Confidence 3445566689999999999999999773 46874
No 10
>PF01554 MatE: MatE; InterPro: IPR002528 Characterised members of the Multi Antimicrobial Extrusion (MATE) family function as drug/sodium antiporters. These proteins mediate resistance to a wide range of cationic dyes, fluroquinolones, aminoglycosides and other structurally diverse antibodies and drugs. MATE proteins are found in bacteria, archaea and eukaryotes. These proteins are predicted to have 12 alpha-helical transmembrane regions, some of the animal proteins may have an additional C-terminal helix. ; GO: 0015238 drug transmembrane transporter activity, 0015297 antiporter activity, 0006855 drug transmembrane transport, 0055085 transmembrane transport, 0016020 membrane; PDB: 3MKU_B 3MKT_B.
Probab=54.22 E-value=17 Score=27.38 Aligned_cols=32 Identities=13% Similarity=0.190 Sum_probs=26.9
Q ss_pred HHHHhhhhhhhhhHhhhhcccCccccCCCceE
Q psy12413 141 SAGILSIGVGDCFASMVGFKYGKHKWKSKTIW 172 (192)
Q Consensus 141 ~~GIl~lgvGDs~AalVG~~fGk~r~~g~~Ks 172 (192)
.......|++.+++.++|+.+|+.+..+-+|.
T Consensus 40 ~~~~~~~g~~~a~~~~~s~~~G~~~~~~~~~~ 71 (162)
T PF01554_consen 40 ILFMLIFGLATALQILISQNIGAGDYKRAKKV 71 (162)
T ss_dssp HHHHHHHHHHHHHHHHHCCCCCSSSTTTCCCH
T ss_pred HHhhhcccccccccceeecccccccccccccc
Confidence 45557889999999999999999998776654
No 11
>COG1836 Predicted membrane protein [Function unknown]
Probab=38.58 E-value=40 Score=29.27 Aligned_cols=28 Identities=32% Similarity=0.380 Sum_probs=23.4
Q ss_pred HHHHHHHhhhhhhhhhHhhhhcccCccc
Q psy12413 138 LSLSAGILSIGVGDCFASMVGFKYGKHK 165 (192)
Q Consensus 138 ~~~~~GIl~lgvGDs~AalVG~~fGk~r 165 (192)
..++++-+..+-.|++||=||+.+||+.
T Consensus 121 ~~~~~~SvAta~aDT~ASEiG~~~~~~p 148 (247)
T COG1836 121 LGGFAASVATANADTLASEIGKAYGKRP 148 (247)
T ss_pred HHHHHHHHHHHhhhHHHHHHhHhhCCCe
Confidence 4556777788899999999999998865
No 12
>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=34.34 E-value=97 Score=22.98 Aligned_cols=58 Identities=10% Similarity=0.032 Sum_probs=36.0
Q ss_pred cchhHHHHHHHHHHHHhcCCCCCCc-hhHHHHHHHHh-hhhhhhhhHhhhhcccCccccC
Q psy12413 110 VALTPLYLLTGCSLPLWLSPGPLDQ-ADMLSLSAGIL-SIGVGDCFASMVGFKYGKHKWK 167 (192)
Q Consensus 110 l~lt~iyLllG~~ipl~l~~~~~~~-~~~~~~~~GIl-~lgvGDs~AalVG~~fGk~r~~ 167 (192)
++..-+-|...|.+...=+.+..++ .....+.+++. ++|+==....++.+-|||+-=|
T Consensus 15 li~GiiLL~~aCIfAfidfsK~~~~~~~~wRalSii~FI~giil~lG~~i~s~ygr~C~~ 74 (92)
T PF05767_consen 15 LIGGIILLIAACIFAFIDFSKNTKPTDYTWRALSIICFILGIILTLGIVIFSMYGRYCRP 74 (92)
T ss_pred HHHHHHHHHHHHHHHhhhhccCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCC
Confidence 3444455666666666544443222 22345555554 6777777888999999998877
No 13
>PF01940 DUF92: Integral membrane protein DUF92; InterPro: IPR002794 Many members of this family have no known function and are predicted to be integral membrane proteins.; GO: 0016021 integral to membrane
Probab=33.76 E-value=2.7e+02 Score=23.74 Aligned_cols=31 Identities=19% Similarity=0.161 Sum_probs=25.3
Q ss_pred hhHHHHHHHHhhhhhhhhhHhhhhcccCccc
Q psy12413 135 ADMLSLSAGILSIGVGDCFASMVGFKYGKHK 165 (192)
Q Consensus 135 ~~~~~~~~GIl~lgvGDs~AalVG~~fGk~r 165 (192)
..+..++.|-+.-+-+|++||=+|+.++++.
T Consensus 104 ~~~~~~~~~s~A~a~aDTwASEiG~ls~~~P 134 (226)
T PF01940_consen 104 PLLLLAFLGSIAAANADTWASEIGVLSKGPP 134 (226)
T ss_pred HHHHHHHHHHHHHHhhhHHHHhhhhhcCCCC
Confidence 3455678888899999999999999887644
No 14
>PRK00816 rnfD electron transport complex protein RnfD; Reviewed
Probab=31.15 E-value=4.1e+02 Score=24.22 Aligned_cols=32 Identities=31% Similarity=0.382 Sum_probs=20.7
Q ss_pred HHHHHHHHHhcCCCCCCchhHHHHHHHHhhhhhhhhhHhhhhc
Q psy12413 117 LLTGCSLPLWLSPGPLDQADMLSLSAGILSIGVGDCFASMVGF 159 (192)
Q Consensus 117 LllG~~ipl~l~~~~~~~~~~~~~~~GIl~lgvGDs~AalVG~ 159 (192)
++.|..+.+.+++ .+...+..+|..+|-++||
T Consensus 78 ~vTglLlal~lPp-----------~~P~W~~~iG~~fAI~igK 109 (350)
T PRK00816 78 LLTALLLAVSIPP-----------LAPWWMIVIGTVFAIIIAK 109 (350)
T ss_pred HHHHHHHHHhcCC-----------CCcHHHHHHHHHHHHHHHH
Confidence 4566666666665 2445566777777777776
No 15
>TIGR01946 rnfD electron transport complex, RnfABCDGE type, D subunit. The six subunit complex RnfABCDGE in Rhodobacter capsulatus encodes an apparent NADH oxidoreductase responsible for electron transport to nitrogenase, necessary for nitrogen fixation. A closely related complex in E. coli, RsxABCDGE (Reducer of SoxR), reduces the 2Fe-2S-containing superoxide sensor SoxR, active as a transcription factor when oxidized. This family of putative NADH oxidoreductase complexes exists in many of the same species as the related NQR, a Na(+)-translocating NADH-quinone reductase, but is distinct. This model describes the A subunit.
Probab=22.36 E-value=5.8e+02 Score=22.99 Aligned_cols=32 Identities=34% Similarity=0.459 Sum_probs=20.8
Q ss_pred HHHHHHHHHhcCCCCCCchhHHHHHHHHhhhhhhhhhHhhhhc
Q psy12413 117 LLTGCSLPLWLSPGPLDQADMLSLSAGILSIGVGDCFASMVGF 159 (192)
Q Consensus 117 LllG~~ipl~l~~~~~~~~~~~~~~~GIl~lgvGDs~AalVG~ 159 (192)
+..|..+.+.+++ .+...+..+|..+|-++||
T Consensus 72 ~vTglLlal~lP~-----------~~P~W~~~ig~~faI~igK 103 (327)
T TIGR01946 72 ILTGLLLAVAIPP-----------LAPWWMIVIGTIFAIVLGK 103 (327)
T ss_pred HHHHHHHHHHcCC-----------CCcHHHHHHHHHHHHHHHH
Confidence 4566666666665 2445666777777777776
No 16
>TIGR00297 conserved hypothetical protein TIGR00297.
Probab=21.03 E-value=1.3e+02 Score=26.02 Aligned_cols=28 Identities=25% Similarity=0.361 Sum_probs=23.7
Q ss_pred HHHHHHHHhhhhhhhhhHhhhhcccCcc
Q psy12413 137 MLSLSAGILSIGVGDCFASMVGFKYGKH 164 (192)
Q Consensus 137 ~~~~~~GIl~lgvGDs~AalVG~~fGk~ 164 (192)
+..++.|-+.-+-+|++||=+|+.++++
T Consensus 111 ~~~~f~~s~A~a~aDT~ASEiG~ls~~~ 138 (237)
T TIGR00297 111 LALGYVASVATALSDTMASEIGKAYGKN 138 (237)
T ss_pred HHHHHHHHHHHHHcchHHHhhhhccCCC
Confidence 3456888888899999999999999873
No 17
>PF03116 NQR2_RnfD_RnfE: NQR2, RnfD, RnfE family; InterPro: IPR004338 This family of proteins describes the Nqr2 (NqrB) subunit of the bacterial 6-subunit sodium-translocating NADH-ubiquinone oxidoreductase (i.e. a respiration linked sodium pump). In Vibrio cholerae, it negatively regulates the expression of virulence factors through inhibiting (by an unknown mechanism) the transcription of the transcriptional activator ToxT []. The family also includes RnfD, which is involved in nitrogen fixation. The similarity of RnfD to NADH-ubiquinone oxidoreductases was previously noted [].; GO: 0006810 transport, 0016020 membrane
Probab=20.57 E-value=6.1e+02 Score=22.55 Aligned_cols=32 Identities=31% Similarity=0.597 Sum_probs=18.8
Q ss_pred HHHHHHHHHhcCCCCCCchhHHHHHHHHhhhhhhhhhHhhhhc
Q psy12413 117 LLTGCSLPLWLSPGPLDQADMLSLSAGILSIGVGDCFASMVGF 159 (192)
Q Consensus 117 LllG~~ipl~l~~~~~~~~~~~~~~~GIl~lgvGDs~AalVG~ 159 (192)
+..|..+.+.+++. .......+|..+|-++||
T Consensus 76 ~vTglLlal~LP~~-----------~P~w~v~ig~~~aI~i~K 107 (313)
T PF03116_consen 76 VVTGLLLALLLPPS-----------VPLWVVAIGSFFAIVIGK 107 (313)
T ss_pred HHHHHHHHHhCCCC-----------CcHHHHHHHHHHHHHHHH
Confidence 44555555555552 344556667777777766
No 18
>PF14256 YwiC: YwiC-like protein
Probab=20.52 E-value=4e+02 Score=20.47 Aligned_cols=62 Identities=16% Similarity=0.262 Sum_probs=36.3
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHhcccCCCcchhHHHHHH-H--HHHHHhhhhhhhHHHHHHHH
Q psy12413 8 LHSLVLLVIYWVACVLIAIAVIAFQISSNQKATTSLRKYFHL-L--AVAVYIPGLVFNRCLLYLAS 70 (192)
Q Consensus 8 ~~~r~~li~~W~~~~~~~i~~v~~~~~~~~~~~~~~RK~fHl-l--~~lif~p~~~~~~~~l~l~l 70 (192)
+.....+...|+..-...-+...+.+++++++.. .||..=. . +....+|.+..+|.++....
T Consensus 24 ~w~~~~L~~aw~~~yl~~~p~~~~~k~r~~~~~~-~~~~~~~Yg~~a~~~~l~~l~~~p~ll~~~~ 88 (129)
T PF14256_consen 24 SWAHLPLLLAWLFGYLAFYPFLLWLKQRRRRRPR-YLKWALIYGAIALVFGLPALLYAPRLLWWAL 88 (129)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHhcccccchh-HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence 5667788899998777666666565444322322 3333222 2 22335566777888776665
Done!