Query 018777
Match_columns 350
No_of_seqs 157 out of 1026
Neff 6.3
Searched_HMMs 46136
Date Fri Mar 29 03:57:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018777.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/018777hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG3346 Uncharacterized conser 100.0 8.2E-49 1.8E-53 365.0 24.6 215 73-339 18-234 (252)
2 PF02104 SURF1: SURF1 family; 100.0 2.3E-47 5E-52 350.6 23.0 210 76-334 2-212 (212)
3 cd06662 SURF1 SURF1 superfamil 100.0 1.2E-44 2.6E-49 329.3 22.8 202 82-338 1-202 (202)
4 KOG1563 Mitochondrial protein 100.0 1.1E-44 2.4E-49 334.3 21.5 227 71-346 59-285 (288)
5 COG4578 GutM Glucitol operon a 88.1 0.49 1.1E-05 40.4 3.1 28 69-96 9-36 (128)
6 PF11293 DUF3094: Protein of u 67.4 3 6.6E-05 30.4 1.2 38 51-88 3-49 (55)
7 PF12273 RCR: Chitin synthesis 50.6 8.4 0.00018 32.7 1.3 24 69-92 1-24 (130)
8 PF14981 FAM165: FAM165 family 34.9 83 0.0018 22.3 4.0 29 76-104 18-46 (51)
9 KOG1691 emp24/gp25L/p24 family 31.5 30 0.00064 32.2 1.8 29 72-100 179-210 (210)
10 COG4736 CcoQ Cbb3-type cytochr 30.3 63 0.0014 24.1 3.0 16 322-337 7-22 (60)
11 PF04375 HemX: HemX; InterPro 24.4 1.7E+02 0.0038 29.3 6.0 10 81-90 41-50 (372)
12 PF06724 DUF1206: Domain of Un 24.1 67 0.0015 24.2 2.3 26 71-96 46-71 (73)
13 PF11743 DUF3301: Protein of u 24.0 1.1E+02 0.0024 24.7 3.8 25 80-104 8-32 (97)
14 PF10883 DUF2681: Protein of u 23.7 1.2E+02 0.0026 24.4 3.7 16 81-96 16-31 (87)
15 PRK10234 DNA-binding transcrip 23.4 1.2E+02 0.0027 25.6 4.0 23 76-98 10-32 (118)
16 PRK09546 zntB zinc transporter 22.8 1.1E+02 0.0025 29.7 4.3 25 317-341 291-317 (324)
17 TIGR03501 gamma_C_targ gammapr 22.3 1.2E+02 0.0026 18.8 2.7 15 325-339 4-18 (26)
18 PF06923 GutM: Glucitol operon 21.5 1.5E+02 0.0032 24.6 4.0 25 74-98 7-31 (109)
19 PF06212 GRIM-19: GRIM-19 prot 21.1 1.2E+02 0.0027 26.0 3.6 52 60-111 18-72 (130)
20 PF04995 CcmD: Heme exporter p 21.1 2.1E+02 0.0045 19.8 4.2 15 80-94 19-33 (46)
21 TIGR00383 corA magnesium Mg(2+ 20.6 1.3E+02 0.0029 28.8 4.2 29 317-345 285-315 (318)
22 COG5547 Small integral membran 20.2 84 0.0018 23.4 2.0 26 65-90 7-32 (62)
No 1
>COG3346 Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=8.2e-49 Score=364.96 Aligned_cols=215 Identities=33% Similarity=0.568 Sum_probs=173.3
Q ss_pred HHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHhcCCCcccCCCCCCCCCcCCccceEEEEEEEEeCCceEEEcccccc
Q 018777 73 WLLFLPGAISFGLGTWQIFRRQDKIKMLEYRQNRLQMDPLRLNITSPLTEDLKSLEFRRVICQGVFDEQRSIYVGPRSRS 152 (350)
Q Consensus 73 ll~~l~~~i~~~LG~WQl~R~~~K~~li~~~~~~~~~~Pv~l~~~~~~~~~~~~~eyrrV~v~G~fd~~~~ilv~nR~~~ 152 (350)
+++++.++++++||+||++|++||.++|++++++..++|+++++........++.+||+|+++|+|++++++++++|..
T Consensus 18 ~l~~~~~~il~~LGtWQl~Rl~wK~~lia~ie~r~~appv~l~~~~~~~~~~~~~eyrrV~ltG~fl~~~e~l~~~r~~- 96 (252)
T COG3346 18 LLVLATFAILLGLGTWQLQRLHWKLALIARIEARLHAPPVPLPKLLDWADSGADLEYRRVTLTGTFLHDKEVLLYARVT- 96 (252)
T ss_pred HHHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHhcCCCCCcccccchhhcCcccceEEEEEEEEEcCCceEEEeeeee-
Confidence 3445666778899999999999999999999999999999999987643333458999999999999999999999987
Q ss_pred CCCCCcccEEEEeeeeecCCCCCCCCceEEEEeccccCCCCCCCcccccCCCCCCCCCcccccccccchhhhhccCCCcc
Q 018777 153 ISGVTENGYYVITPLMPIPNNPQSVKSPVLVNRGWVPRSWRDKSSEVSRDSEQPLNLAPSVQQSQQSSWWWFWLKKPNIV 232 (350)
Q Consensus 153 ~~G~~~~GY~VltPf~~~~g~~~~~~~~VLVNRGWVp~~~~~~~~~~~~~~~~~p~v~~~~~~~~~~~~~~~~~~~p~~~ 232 (350)
+| +.||+|+|||++++| ..|||||||||.+.++... ..
T Consensus 97 -~g--~~Gy~VlTPf~~~dG------~~VLVnRG~vp~e~~~~~~----------r~----------------------- 134 (252)
T COG3346 97 -EG--GPGYEVLTPFALDDG------RTVLVNRGFVPRERKEASP----------RA----------------------- 134 (252)
T ss_pred -cC--CccEEEecccEecCC------cEEEEeCCcccCcccCCCC----------CC-----------------------
Confidence 57 899999999999886 6999999999998654331 11
Q ss_pred cCCCCCcceEEEEEEEEcCCCCCCCCCCCCCCCCceeeeCHHHHHHHcCCC--CcceEEEecCCCCCCCCCCCCCCCccc
Q 018777 233 EDDVPSIASVEVVGVVRGSEKPSIFVPANDPSSCQWFYVDVPAIACACGLP--ENTVYIEDTNENVNPSNPYPLPKDVST 310 (350)
Q Consensus 233 ~~~~~p~g~v~v~G~lr~~e~~~~~~~~n~~~~~~w~~iD~~~la~~~g~~--~~~~~v~~~~~~~~~~~~~p~p~~~~~ 310 (350)
...+.|+|+|+|++|++|+.+.+.+.|++..+.||++|+++||+..|++ +.++|+.....+ +|-.+|....+
T Consensus 135 --~~~~~g~v~I~Gl~r~~e~~~~~l~~nd~~~~~~y~~d~~~~A~~~gl~~~~~~~~v~ae~~~----~pgglp~~~~~ 208 (252)
T COG3346 135 --EGQPAGPVTITGLLRPPEPGGSLLPDNDPGKNLWYSIDLAAFAQATGLPDLLAPYFVDAEGQD----NPGGLPVGGVT 208 (252)
T ss_pred --CCCCCCcEEEEEEEecCCCccccCcccCcccCeeeeccHHHHHhhcCCCcccceeEEecCCCC----CCCCCCCCCCc
Confidence 0234589999999999998888899999999999999999999999999 345444443321 12233333333
Q ss_pred cccccCCCCCchHHHHHHHHHHHHHHHHH
Q 018777 311 LLRSSVMPQDHLNYTLTWYSLSAAVTFMA 339 (350)
Q Consensus 311 ~~~~~~~p~~Hl~YAlQWf~LA~~~l~~~ 339 (350)
.+ ..+|+|++||+|||+||+++++++
T Consensus 209 ~~---~~~n~HL~YaitWf~La~~l~~~~ 234 (252)
T COG3346 209 VI---DFPNNHLSYALTWFGLAAALLAGL 234 (252)
T ss_pred ee---ccCCCcceehhHHHHHHHHHHHHH
Confidence 22 358999999999999999987554
No 2
>PF02104 SURF1: SURF1 family; InterPro: IPR002994 The surfeit locus 1 gene (SURF1 or surf-1) encodes a conserved protein of about 300 amino-acid residues that seems to be involved in the biogenesis of cytochrome c oxidase []. Vertebrate SURF1 is evolutionary related to yeast protein SHY1. There seems to be two transmembrane regions in these proteins, one in the N-terminal, the other in the C-terminal. Rickettsia prowazekii protein RP733 is also a member of this protein family.; GO: 0016020 membrane
Probab=100.00 E-value=2.3e-47 Score=350.64 Aligned_cols=210 Identities=35% Similarity=0.583 Sum_probs=169.1
Q ss_pred HHHHHHHhhcchhhhhhHHHHHHHHHHHHHHhcCCCcccCCCCCCCCCcCCccceEEEEEEEEeCCceEEEccccccCCC
Q 018777 76 FLPGAISFGLGTWQIFRRQDKIKMLEYRQNRLQMDPLRLNITSPLTEDLKSLEFRRVICQGVFDEQRSIYVGPRSRSISG 155 (350)
Q Consensus 76 ~l~~~i~~~LG~WQl~R~~~K~~li~~~~~~~~~~Pv~l~~~~~~~~~~~~~eyrrV~v~G~fd~~~~ilv~nR~~~~~G 155 (350)
++++++|++||+||++|++||++++++++++.+++|+++++....+...++.+||+|+++|+|++++++||+||.+ +|
T Consensus 2 l~~~~~~~~LG~WQl~R~~~K~~l~~~~~~~~~~~pv~l~~~~~~~~~~~~~~~r~V~~~G~~~~~~~~ll~~r~~--~g 79 (212)
T PF02104_consen 2 LLAIALLVGLGFWQLDRAQWKQALIARIEARLSAPPVPLPDLLDPDALPEDLEYRRVTVSGRFDPEKQILLDNRSR--DG 79 (212)
T ss_pred ChHHHHHHHHCHHHhCHHHHHHHHHHHHHHHhhCCCcCCccccccccCccccCceEEEEEEEECCCceEEEecccc--CC
Confidence 4567889999999999999999999999999999999998886322235689999999999999999999999998 57
Q ss_pred CCcccEEEEeeeeecCCCCCCCCceEEEEeccccCCCCCCCcccccCCCCCCCCCcccccccccchhhhhccCCCcccCC
Q 018777 156 VTENGYYVITPLMPIPNNPQSVKSPVLVNRGWVPRSWRDKSSEVSRDSEQPLNLAPSVQQSQQSSWWWFWLKKPNIVEDD 235 (350)
Q Consensus 156 ~~~~GY~VltPf~~~~g~~~~~~~~VLVNRGWVp~~~~~~~~~~~~~~~~~p~v~~~~~~~~~~~~~~~~~~~p~~~~~~ 235 (350)
+.||+|+|||+++|| ..|||||||||.+..++.. +|. . + .
T Consensus 80 --~~Gy~Vltp~~~~dg------~~vlVnRGWvp~~~~~~~~--------~p~-~---------------------~--p 119 (212)
T PF02104_consen 80 --RPGYHVLTPFRLDDG------RAVLVNRGWVPAEAADRAA--------LPE-Q---------------------V--P 119 (212)
T ss_pred --CceEEEEEEEEecCC------cEEEEEecccccccCCccc--------ccc-c---------------------c--c
Confidence 899999999999865 6999999999987555431 111 0 0 0
Q ss_pred CCCcceEEEEEEEEcCCCC-CCCCCCCCCCCCceeeeCHHHHHHHcCCCCcceEEEecCCCCCCCCCCCCCCCccccccc
Q 018777 236 VPSIASVEVVGVVRGSEKP-SIFVPANDPSSCQWFYVDVPAIACACGLPENTVYIEDTNENVNPSNPYPLPKDVSTLLRS 314 (350)
Q Consensus 236 ~~p~g~v~v~G~lr~~e~~-~~~~~~n~~~~~~w~~iD~~~la~~~g~~~~~~~v~~~~~~~~~~~~~p~p~~~~~~~~~ 314 (350)
+++.|+++|+|++++++.+ +.|.++|++..++|+++|+++|++.+|.+..+.|+.+..+..... ..+.. .+ .
T Consensus 120 ~~~~g~~~v~G~l~~~~~~~~~~~~~~~~~~~~~~~~d~~~~a~~~g~~~~p~~l~~~~~~~~~g-~~~~~---~~---~ 192 (212)
T PF02104_consen 120 APPSGEVTVTGRLRPPEPRGGIFTPENDPEPNRWQSIDLEAMAQALGLPLAPFYLQQDADPAAAG-PPPPW---PP---V 192 (212)
T ss_pred CCCCceEEEEEEEECCCCcCCcCccCCCCCCceEEecCHHHHHHHhCCCCCCeEEEeccCccccc-ccCcC---CC---c
Confidence 2357999999999988877 568888999999999999999999999988888887765421111 11111 11 0
Q ss_pred cCCCCCchHHHHHHHHHHHH
Q 018777 315 SVMPQDHLNYTLTWYSLSAA 334 (350)
Q Consensus 315 ~~~p~~Hl~YAlQWf~LA~~ 334 (350)
...+++|++||+|||+||++
T Consensus 193 ~~~~~~Hl~YA~qWf~lA~~ 212 (212)
T PF02104_consen 193 VMPPNKHLGYALQWFGLALA 212 (212)
T ss_pred CCCccchHHHHHHHHHHHcC
Confidence 25789999999999999974
No 3
>cd06662 SURF1 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring complex of the respiratory chain, is an assemblage of nuclear and mitochondrially-encoded subunits. Its assembly is mediated by nuclear encoded assembly factors, one of which is Surf1/Shy1. Mutations in human Surf1 are a major cause of Leigh syndrome, a severe neurodegenerative disorder.
Probab=100.00 E-value=1.2e-44 Score=329.30 Aligned_cols=202 Identities=32% Similarity=0.570 Sum_probs=165.8
Q ss_pred HhhcchhhhhhHHHHHHHHHHHHHHhcCCCcccCCCCCCCCCcCCccceEEEEEEEEeCCceEEEccccccCCCCCcccE
Q 018777 82 SFGLGTWQIFRRQDKIKMLEYRQNRLQMDPLRLNITSPLTEDLKSLEFRRVICQGVFDEQRSIYVGPRSRSISGVTENGY 161 (350)
Q Consensus 82 ~~~LG~WQl~R~~~K~~li~~~~~~~~~~Pv~l~~~~~~~~~~~~~eyrrV~v~G~fd~~~~ilv~nR~~~~~G~~~~GY 161 (350)
|++||+||++|++||++++++++++.+++|+++++..... ..+.+||+|+++|+|+++++++++||.+ +| +.||
T Consensus 1 ~~~LG~WQl~R~~~K~~l~~~~~~~~~~~pv~l~~~~~~~--~~~~~~r~V~v~G~~~~~~~~ll~~r~~--~g--~~Gy 74 (202)
T cd06662 1 LVGLGFWQLQRAEWKEALIARIEARLAAPPVPLPELLAPP--LEDLEYRRVTVTGTFLPEKEVLLDNRTR--DG--RPGY 74 (202)
T ss_pred CccccHHHHhHHHHHHHHHHHHHHHhcCCCCCCCcccccc--ccccceEEEEEEEEECCCCEEEEecccc--CC--CCce
Confidence 6799999999999999999999999999999998876422 4678999999999999999999999998 67 8999
Q ss_pred EEEeeeeecCCCCCCCCceEEEEeccccCCCCCCCcccccCCCCCCCCCcccccccccchhhhhccCCCcccCCCCCcce
Q 018777 162 YVITPLMPIPNNPQSVKSPVLVNRGWVPRSWRDKSSEVSRDSEQPLNLAPSVQQSQQSSWWWFWLKKPNIVEDDVPSIAS 241 (350)
Q Consensus 162 ~VltPf~~~~g~~~~~~~~VLVNRGWVp~~~~~~~~~~~~~~~~~p~v~~~~~~~~~~~~~~~~~~~p~~~~~~~~p~g~ 241 (350)
+|++||++.+| ..|||||||||.+..++. +|.+ .++.|+
T Consensus 75 ~vl~p~~~~~g------~~ilVnrGwv~~~~~~~~---------~~~~--------------------------~~p~g~ 113 (202)
T cd06662 75 EVLTPFRLDDG------RTVLVNRGWVPADADRPA---------LPAV--------------------------APPTGE 113 (202)
T ss_pred EEEeeeEECCC------CEEEEECCCCCCCccCcc---------cCCC--------------------------CCCCcc
Confidence 99999999865 589999999998743321 1111 236799
Q ss_pred EEEEEEEEcCCCCCCCCCCCCCCCCceeeeCHHHHHHHcCCCCcceEEEecCCCCCCCCCCCCCCCccccccccCCCCCc
Q 018777 242 VEVVGVVRGSEKPSIFVPANDPSSCQWFYVDVPAIACACGLPENTVYIEDTNENVNPSNPYPLPKDVSTLLRSSVMPQDH 321 (350)
Q Consensus 242 v~v~G~lr~~e~~~~~~~~n~~~~~~w~~iD~~~la~~~g~~~~~~~v~~~~~~~~~~~~~p~p~~~~~~~~~~~~p~~H 321 (350)
++|+|+++.+|..+.+.+.++...+.|+.+|++.|++.+|.+..+.++....... ...+.+. .. ..+.+++|
T Consensus 114 ~~v~G~l~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~--~~---~~~~~~~H 185 (202)
T cd06662 114 VTVTGRLRPPEPRGLFLPPNDPAANPWQNRDLEAMAQALGLPLVPLVLQLASGAP---PGLPRPW--PP---PVMIPNKH 185 (202)
T ss_pred EEEEEEEecCCCCCCcCCCCCcccccccccCHHHHHHHHCCCCCCeEEEecCCCC---CCCCCCC--CC---CCCCCcch
Confidence 9999999999988887777888888899999999999999988877776654321 1112222 11 13679999
Q ss_pred hHHHHHHHHHHHHHHHH
Q 018777 322 LNYTLTWYSLSAAVTFM 338 (350)
Q Consensus 322 l~YAlQWf~LA~~~l~~ 338 (350)
++||+|||+||+++++|
T Consensus 186 l~YA~qWf~lA~~~~~~ 202 (202)
T cd06662 186 LGYAVQWFALAAAALVL 202 (202)
T ss_pred hhhHHHHHHHHHHHHhC
Confidence 99999999999998864
No 4
>KOG1563 consensus Mitochondrial protein Surfeit 1/SURF1/SHY1, required for expression of cytochrome oxidase [Energy production and conversion]
Probab=100.00 E-value=1.1e-44 Score=334.29 Aligned_cols=227 Identities=37% Similarity=0.686 Sum_probs=185.0
Q ss_pred HHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHhcCCCcccCCCCCCCCCcCCccceEEEEEEEEeCCceEEEcccc
Q 018777 71 SKWLLFLPGAISFGLGTWQIFRRQDKIKMLEYRQNRLQMDPLRLNITSPLTEDLKSLEFRRVICQGVFDEQRSIYVGPRS 150 (350)
Q Consensus 71 ~~ll~~l~~~i~~~LG~WQl~R~~~K~~li~~~~~~~~~~Pv~l~~~~~~~~~~~~~eyrrV~v~G~fd~~~~ilv~nR~ 150 (350)
+.+|++++.+++|+||+||++|.+||.++|+.+++++.++|++|++.. ++.+++|||+|.++|.|+|+++++|+||.
T Consensus 59 l~~ll~liPittFgLGtWQvkRlkWK~~lI~~l~~rL~~~pi~LP~~~---~~l~~lEyrrV~~rG~F~H~kEm~vgPR~ 135 (288)
T KOG1563|consen 59 LAWLLLLIPITTFGLGTWQVKRLKWKLELIASLKQRLEQEPIPLPKDL---DDLEGLEYRRVKLRGIFLHDKEMYVGPRT 135 (288)
T ss_pred HHHHHHHhhhheeeccceeehhHHHHHHHHHHHHhhhcCCCccCCCCh---hHhcccceEEEEEEEEEcccceEEecccc
Confidence 445666666889999999999999999999999999999999998876 35789999999999999999999999999
Q ss_pred ccCCCCCcccEEEEeeeeecCCCCCCCCceEEEEeccccCCCCCCCcccccCCCCCCCCCcccccccccchhhhhccCCC
Q 018777 151 RSISGVTENGYYVITPLMPIPNNPQSVKSPVLVNRGWVPRSWRDKSSEVSRDSEQPLNLAPSVQQSQQSSWWWFWLKKPN 230 (350)
Q Consensus 151 ~~~~G~~~~GY~VltPf~~~~g~~~~~~~~VLVNRGWVp~~~~~~~~~~~~~~~~~p~v~~~~~~~~~~~~~~~~~~~p~ 230 (350)
+...+....||+|||||.++|+ +..|||||||||....+.. +|+ |
T Consensus 136 r~~~~g~~~Gy~vvTPF~~~d~-----g~~ILVNRGWvp~~~v~pe-----------------------tR~------~- 180 (288)
T KOG1563|consen 136 RSGPKGSEIGYYVVTPFILDDN-----GSIILVNRGWVPRKKVEPE-----------------------TRY------P- 180 (288)
T ss_pred ccCCCCcccceEEeeeeEECCC-----CCEEEEecCccchhhcCcc-----------------------ccc------c-
Confidence 8533323578999999999875 3799999999998643211 111 1
Q ss_pred cccCCCCCcceEEEEEEEEcCCCCCCCCCCCCCCCCceeeeCHHHHHHHcCCCCcceEEEecCCCCCCCCCCCCCCCccc
Q 018777 231 IVEDDVPSIASVEVVGVVRGSEKPSIFVPANDPSSCQWFYVDVPAIACACGLPENTVYIEDTNENVNPSNPYPLPKDVST 310 (350)
Q Consensus 231 ~~~~~~~p~g~v~v~G~lr~~e~~~~~~~~n~~~~~~w~~iD~~~la~~~g~~~~~~~v~~~~~~~~~~~~~p~p~~~~~ 310 (350)
..++.|+|+|+|+||.+|.+..|++.|.|+.+.||+.|+.+||++.|... .|++.+-++..-....|++.+..
T Consensus 181 ----~~~~~~~v~l~gvVRk~e~r~~f~~~n~pe~~~w~y~Dl~~mA~~~G~~P--i~ida~y~~~~~~~g~PIG~q~~- 253 (288)
T KOG1563|consen 181 ----SGQPEGHVELVGVVRKTETRPQFTPVNKPESNVWYYRDLPKMARATGTEP--ILIDALYDDMDTKRGGPIGGQTR- 253 (288)
T ss_pred ----cCCccceEEEEEEEecCCCCCCcccccCCcccceeecCHHHHHHHcCCCc--eEeecccCccccccCCCCCCCce-
Confidence 13467999999999999999999999999999999999999999999763 67777655322222345555444
Q ss_pred cccccCCCCCchHHHHHHHHHHHHHHHHHHHhhccc
Q 018777 311 LLRSSVMPQDHLNYTLTWYSLSAAVTFMAFKRLRPK 346 (350)
Q Consensus 311 ~~~~~~~p~~Hl~YAlQWf~LA~~~l~~~~~~~r~~ 346 (350)
....|+|+.|-+|||+|+++..+|++..+++.
T Consensus 254 ----v~lrN~Hl~YlvTWy~Ls~~t~~l~~~~~~k~ 285 (288)
T KOG1563|consen 254 ----VTLRNEHLQYLVTWYSLSFVTSILWFVKFLKG 285 (288)
T ss_pred ----eeeecCCcceEEEeehHHHHHHHHHHHHHhcc
Confidence 24579999999999999999999998877654
No 5
>COG4578 GutM Glucitol operon activator [Transcription]
Probab=88.13 E-value=0.49 Score=40.44 Aligned_cols=28 Identities=25% Similarity=0.202 Sum_probs=21.6
Q ss_pred hHHHHHHHHHHHHHhhcchhhhhhHHHH
Q 018777 69 TWSKWLLFLPGAISFGLGTWQIFRRQDK 96 (350)
Q Consensus 69 ~w~~ll~~l~~~i~~~LG~WQl~R~~~K 96 (350)
.|+.++++++.++++.||-||+.|.+.-
T Consensus 9 ~~lI~~~vi~w~~q~algwwQ~srfq~a 36 (128)
T COG4578 9 PALIALAVIAWCAQLALGWWQWSRFQSA 36 (128)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455566777788899999999999863
No 6
>PF11293 DUF3094: Protein of unknown function (DUF3094); InterPro: IPR021444 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=67.35 E-value=3 Score=30.37 Aligned_cols=38 Identities=21% Similarity=0.375 Sum_probs=20.5
Q ss_pred ccccccccccccC---------CCCCchHHHHHHHHHHHHHhhcchh
Q 018777 51 SSSSQDQENVRKG---------SAPSSTWSKWLLFLPGAISFGLGTW 88 (350)
Q Consensus 51 ~~~~~~~~~~r~~---------~~~~~~w~~ll~~l~~~i~~~LG~W 88 (350)
.++++||.+|+.+ +.+|+.|..+++++++++.++|=.|
T Consensus 3 rL~pEDQ~~Vd~yL~a~~~~VER~PFrP~~Ll~~li~Vv~gl~llS~ 49 (55)
T PF11293_consen 3 RLNPEDQQRVDEYLQAGVNQVERKPFRPWRLLIVLIVVVIGLGLLSR 49 (55)
T ss_pred CCCHHHHHHHHHHHhCCCCccccCCcchHHHHHHHHHHHHHHHHHHH
Confidence 4567777776633 1455566655555555554444333
No 7
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=50.59 E-value=8.4 Score=32.70 Aligned_cols=24 Identities=13% Similarity=0.246 Sum_probs=11.1
Q ss_pred hHHHHHHHHHHHHHhhcchhhhhh
Q 018777 69 TWSKWLLFLPGAISFGLGTWQIFR 92 (350)
Q Consensus 69 ~w~~ll~~l~~~i~~~LG~WQl~R 92 (350)
+|+.++++|++++++.+++....|
T Consensus 1 RW~l~~iii~~i~l~~~~~~~~~r 24 (130)
T PF12273_consen 1 RWVLFAIIIVAILLFLFLFYCHNR 24 (130)
T ss_pred CeeeHHHHHHHHHHHHHHHHHHHH
Confidence 365555444444444444444333
No 8
>PF14981 FAM165: FAM165 family
Probab=34.89 E-value=83 Score=22.34 Aligned_cols=29 Identities=24% Similarity=0.234 Sum_probs=20.4
Q ss_pred HHHHHHHhhcchhhhhhHHHHHHHHHHHH
Q 018777 76 FLPGAISFGLGTWQIFRRQDKIKMLEYRQ 104 (350)
Q Consensus 76 ~l~~~i~~~LG~WQl~R~~~K~~li~~~~ 104 (350)
++++..+.+.-.||-.|.+.|....+.-+
T Consensus 18 lilClaFAgvK~yQ~krlEak~~k~~aek 46 (51)
T PF14981_consen 18 LILCLAFAGVKMYQRKRLEAKLKKLEAEK 46 (51)
T ss_pred HHHHHHHhhHHHHHHHHHHHHHHHHHHHH
Confidence 34445555777899999999988665433
No 9
>KOG1691 consensus emp24/gp25L/p24 family of membrane trafficking proteins [Intracellular trafficking, secretion, and vesicular transport]
Probab=31.46 E-value=30 Score=32.21 Aligned_cols=29 Identities=24% Similarity=0.527 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHhhcchhhh---hhHHHHHHHH
Q 018777 72 KWLLFLPGAISFGLGTWQI---FRRQDKIKML 100 (350)
Q Consensus 72 ~ll~~l~~~i~~~LG~WQl---~R~~~K~~li 100 (350)
.++.++.+++|++|+.||+ .|+.+|..||
T Consensus 179 ~~fSi~Sl~v~~~va~~QvlyLK~fF~kKKLI 210 (210)
T KOG1691|consen 179 AWFSILSLVVLLSVAGWQVLYLKRFFQKKKLI 210 (210)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhccCC
Confidence 3455666677889999996 5777766553
No 10
>COG4736 CcoQ Cbb3-type cytochrome oxidase, subunit 3 [Posttranslational modification, protein turnover, chaperones]
Probab=30.29 E-value=63 Score=24.15 Aligned_cols=16 Identities=13% Similarity=0.438 Sum_probs=12.6
Q ss_pred hHHHHHHHHHHHHHHH
Q 018777 322 LNYTLTWYSLSAAVTF 337 (350)
Q Consensus 322 l~YAlQWf~LA~~~l~ 337 (350)
.+||-+|+.+.+.+++
T Consensus 7 ~~~a~a~~t~~~~l~f 22 (60)
T COG4736 7 RGFADAWGTIAFTLFF 22 (60)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 5889999988887654
No 11
>PF04375 HemX: HemX; InterPro: IPR007470 The majority of proteins in this family are annotated as uroporphyrin-III C-methyltransferase (2.1.1.107 from EC) []; however, there is no direct evidence to support this annotation for these proteins, which come from mainly pathogenic Gram-negative organisms. There is some evidence to suggest that the proteins are membrane anchored as they have a predicted N-terminal signal peptide and transmembrane domain and may be involved in haem transport [].
Probab=24.43 E-value=1.7e+02 Score=29.28 Aligned_cols=10 Identities=30% Similarity=0.916 Sum_probs=5.6
Q ss_pred HHhhcchhhh
Q 018777 81 ISFGLGTWQI 90 (350)
Q Consensus 81 i~~~LG~WQl 90 (350)
+.++.|.|.+
T Consensus 41 ~alg~~~~~~ 50 (372)
T PF04375_consen 41 LALGAGGWYW 50 (372)
T ss_pred HHHHHHHHHH
Confidence 4445666655
No 12
>PF06724 DUF1206: Domain of Unknown Function (DUF1206); InterPro: IPR009597 This region consists of two a pair of transmembrane helices and occurs three times in each of the family member proteins.
Probab=24.07 E-value=67 Score=24.21 Aligned_cols=26 Identities=31% Similarity=0.616 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHhhcchhhhhhHHHH
Q 018777 71 SKWLLFLPGAISFGLGTWQIFRRQDK 96 (350)
Q Consensus 71 ~~ll~~l~~~i~~~LG~WQl~R~~~K 96 (350)
..+++.++.+.++..|.||+-++-.+
T Consensus 46 G~~ll~~vg~gli~~gi~~~~~a~~~ 71 (73)
T PF06724_consen 46 GRWLLGAVGLGLIGYGIWQFVKAVYR 71 (73)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34455666677789999999877554
No 13
>PF11743 DUF3301: Protein of unknown function (DUF3301); InterPro: IPR021732 This family is conserved in Proteobacteria, but the function is not known.
Probab=23.98 E-value=1.1e+02 Score=24.69 Aligned_cols=25 Identities=20% Similarity=0.213 Sum_probs=18.9
Q ss_pred HHHhhcchhhhhhHHHHHHHHHHHH
Q 018777 80 AISFGLGTWQIFRRQDKIKMLEYRQ 104 (350)
Q Consensus 80 ~i~~~LG~WQl~R~~~K~~li~~~~ 104 (350)
+++++.-+||..|..|.....++..
T Consensus 8 l~~~~~~~w~~~~~~E~A~~~a~~~ 32 (97)
T PF11743_consen 8 LALVGWFWWQSRRQRERALQAARRA 32 (97)
T ss_pred HHHHHHHHHHHhhHHHHHHHHHHHH
Confidence 4555788999999999877666543
No 14
>PF10883 DUF2681: Protein of unknown function (DUF2681); InterPro: IPR020274 This entry contains membrane proteins with no known function.
Probab=23.71 E-value=1.2e+02 Score=24.35 Aligned_cols=16 Identities=6% Similarity=0.349 Sum_probs=12.3
Q ss_pred HHhhcchhhhhhHHHH
Q 018777 81 ISFGLGTWQIFRRQDK 96 (350)
Q Consensus 81 i~~~LG~WQl~R~~~K 96 (350)
+.++...||+.+++..
T Consensus 16 ~i~~y~~~k~~ka~~~ 31 (87)
T PF10883_consen 16 LILAYLWWKVKKAKKQ 31 (87)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3446778999998877
No 15
>PRK10234 DNA-binding transcriptional activator GutM; Provisional
Probab=23.40 E-value=1.2e+02 Score=25.64 Aligned_cols=23 Identities=26% Similarity=0.468 Sum_probs=15.4
Q ss_pred HHHHHHHhhcchhhhhhHHHHHH
Q 018777 76 FLPGAISFGLGTWQIFRRQDKIK 98 (350)
Q Consensus 76 ~l~~~i~~~LG~WQl~R~~~K~~ 98 (350)
+++.++=+.||.||+.+...--.
T Consensus 10 ~~a~llQ~~lg~~Qik~Fn~~~~ 32 (118)
T PRK10234 10 VIAWCAQLALGGWQISRFNRAFD 32 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33434446899999998875433
No 16
>PRK09546 zntB zinc transporter; Reviewed
Probab=22.84 E-value=1.1e+02 Score=29.67 Aligned_cols=25 Identities=12% Similarity=0.230 Sum_probs=14.0
Q ss_pred CCCCc--hHHHHHHHHHHHHHHHHHHH
Q 018777 317 MPQDH--LNYTLTWYSLSAAVTFMAFK 341 (350)
Q Consensus 317 ~p~~H--l~YAlQWf~LA~~~l~~~~~ 341 (350)
+|+-| +||.+.+..++++++.+++.
T Consensus 291 mPel~~~~gy~~~l~im~~i~~~~~~~ 317 (324)
T PRK09546 291 IPGGGWPFGFSIFCLLLVVLIGGVAWW 317 (324)
T ss_pred CCCcCCcchHHHHHHHHHHHHHHHHHH
Confidence 56666 66666565665555444443
No 17
>TIGR03501 gamma_C_targ gammaproteobacterial enzyme C-terminal transmembrane domain. This homology domain, largely restricted to a subset of the gamma proteobacteria that excludes the enterobacteria, is found at the extreme carboxyl-terminus of a diverse set of proteins, most of which are enzymes with conventional signal sequences and with hydrolytic activities: nucleases, proteases, agarases, etc. Species that have this domain at all typically have from two to fifteen proteins tagged with this domain at the C-terminus. The agarase AgaA from Vibro sp. strain JT0107 is secreted into the medium, while the same protein heterologously expressed in E. coli is retained in the cell fraction. This suggests cleavage and release in species with this domain. Both this suggestion, and the chemical structure of the domain (motif, hydrophobic predicted transmembrane helix, cluster of basic residues) closely parallels that of the LPXTG/sortase system and the PEP-CTERM/exosortase(EpsH) system.
Probab=22.35 E-value=1.2e+02 Score=18.82 Aligned_cols=15 Identities=27% Similarity=0.403 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHHHHH
Q 018777 325 TLTWYSLSAAVTFMA 339 (350)
Q Consensus 325 AlQWf~LA~~~l~~~ 339 (350)
++.|++|.+..++.+
T Consensus 4 SlGwl~LllL~~~~~ 18 (26)
T TIGR03501 4 SLGWLSLLLLLLLGL 18 (26)
T ss_pred hHHHHHHHHHHHHHH
Confidence 567988877655443
No 18
>PF06923 GutM: Glucitol operon activator protein (GutM); InterPro: IPR009693 This family consists of several glucitol operon activator (GutM) proteins. Expression of the glucitol (gut) operon in Escherichia coli is regulated by an unusual, complex system, which consists of an activator (encoded by the gutM gene) and a repressor (encoded by the gutR gene) in addition to the cAMP-CRP complex (CRP, cAMP receptor protein). Synthesis of the mRNA, which initiates at the promoter specific to the gutR gene, occurs within the gutM gene. Expressional control of the gut operon appears to occur as a consequence of the antagonistic action of the products of the autogenously regulated gutM and gutR genes [].
Probab=21.52 E-value=1.5e+02 Score=24.62 Aligned_cols=25 Identities=28% Similarity=0.270 Sum_probs=16.5
Q ss_pred HHHHHHHHHhhcchhhhhhHHHHHH
Q 018777 74 LLFLPGAISFGLGTWQIFRRQDKIK 98 (350)
Q Consensus 74 l~~l~~~i~~~LG~WQl~R~~~K~~ 98 (350)
+++++.++=+.||.||+.++..--.
T Consensus 7 ~~~~~~~lQ~~l~~~Qik~f~~~~~ 31 (109)
T PF06923_consen 7 LLVIAWLLQILLGWFQIKNFNKAYK 31 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444446899999998875433
No 19
>PF06212 GRIM-19: GRIM-19 protein; InterPro: IPR009346 This family consists of several eukaryotic gene associated with retinoic-interferon-induced mortality 19 (GRIM-19) proteins. GRIM-19, was reported to encode a small protein primarily distributed in the nucleus and was able to promote cell death induced by IFN-beta and RA. A bovine homologue of GRIM-19 was co-purified with mitochondrial NADH:ubiquinone oxidoreductase (complex I) in bovine heart. Therefore, its exact cellular localisation and function are unclear. It has now been discovered that GRIM-19 is a specific interacting protein which negatively regulates Stat3 activity [].
Probab=21.10 E-value=1.2e+02 Score=26.03 Aligned_cols=52 Identities=21% Similarity=0.275 Sum_probs=26.9
Q ss_pred cccCCCCCc-hHHHHHHHHHHHHHhhcchhhhhhHHHHHH--HHHHHHHHhcCCC
Q 018777 60 VRKGSAPSS-TWSKWLLFLPGAISFGLGTWQIFRRQDKIK--MLEYRQNRLQMDP 111 (350)
Q Consensus 60 ~r~~~~~~~-~w~~ll~~l~~~i~~~LG~WQl~R~~~K~~--li~~~~~~~~~~P 111 (350)
|+-++-.+. .+..+.++..++.++..|+|++.....++. .++....+++--|
T Consensus 18 v~y~R~~p~rg~sg~~~~~~~~~~~~~G~y~~~~~~r~~r~~~~E~~~ar~al~P 72 (130)
T PF06212_consen 18 VQYKRNLPKRGPSGWTMFAGGAGIMAYGFYKVGQGNRERRELKREKRWARIALLP 72 (130)
T ss_pred CcccccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhH
Confidence 444432222 345555555666677889999875433332 2333444444444
No 20
>PF04995 CcmD: Heme exporter protein D (CcmD); InterPro: IPR007078 The CcmD protein is part of a C-type cytochrome biogenesis operon []. The exact function of this protein is uncertain. It has been proposed that CcmC, CcmD and CcmE interact directly with each other, establishing a cytoplasm to periplasm haem delivery pathway for cytochrome c maturation []. This protein is found fused to CcmE in P52224 from SWISSPROT. These proteins contain a predicted transmembrane helix.; GO: 0006810 transport, 0016021 integral to membrane
Probab=21.06 E-value=2.1e+02 Score=19.76 Aligned_cols=15 Identities=13% Similarity=-0.214 Sum_probs=6.2
Q ss_pred HHHhhcchhhhhhHH
Q 018777 80 AISFGLGTWQIFRRQ 94 (350)
Q Consensus 80 ~i~~~LG~WQl~R~~ 94 (350)
++++....|+-.+..
T Consensus 19 ~~l~~~~~~~~r~~~ 33 (46)
T PF04995_consen 19 AGLIVWSLRRRRRLR 33 (46)
T ss_pred HHHHHHHHHHHHHHH
Confidence 333444444443333
No 21
>TIGR00383 corA magnesium Mg(2+) and cobalt Co(2+) transport protein (corA). The article in Microb Comp Genomics 1998;3(3):151-69 (Medline:98448512) discusses this family and suggests that some members may have functions other than Mg2+ transport.
Probab=20.61 E-value=1.3e+02 Score=28.84 Aligned_cols=29 Identities=14% Similarity=0.075 Sum_probs=15.7
Q ss_pred CCCCc--hHHHHHHHHHHHHHHHHHHHhhcc
Q 018777 317 MPQDH--LNYTLTWYSLSAAVTFMAFKRLRP 345 (350)
Q Consensus 317 ~p~~H--l~YAlQWf~LA~~~l~~~~~~~r~ 345 (350)
+|+-| .||.+.+..++++++.+++.+-|+
T Consensus 285 mP~l~~~~gy~~~l~~m~~i~~~~~~~fkrk 315 (318)
T TIGR00383 285 MPELNWKYGYPAVLIVMAVIALGPLIYFRRK 315 (318)
T ss_pred CccccchhHHHHHHHHHHHHHHHHHHHHHHc
Confidence 56666 566666666666555444333333
No 22
>COG5547 Small integral membrane protein [Function unknown]
Probab=20.23 E-value=84 Score=23.37 Aligned_cols=26 Identities=12% Similarity=0.203 Sum_probs=12.4
Q ss_pred CCCchHHHHHHHHHHHHHhhcchhhh
Q 018777 65 APSSTWSKWLLFLPGAISFGLGTWQI 90 (350)
Q Consensus 65 ~~~~~w~~ll~~l~~~i~~~LG~WQl 90 (350)
|+.+-...++.++.++..+.+|+|-.
T Consensus 7 fkypIIgglvglliAili~t~GfwKt 32 (62)
T COG5547 7 FKYPIIGGLVGLLIAILILTFGFWKT 32 (62)
T ss_pred hccchHHHHHHHHHHHHHHHHHHHHH
Confidence 44443333333333344457788753
Done!