Query 010998
Match_columns 496
No_of_seqs 198 out of 870
Neff 6.4
Searched_HMMs 46136
Date Fri Mar 29 06:57:14 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/010998.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/010998hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 CHL00177 ccs1 c-type cytochrom 100.0 4.7E-92 1E-96 740.7 43.2 392 94-495 1-393 (426)
2 PF05140 ResB: ResB-like famil 100.0 2.3E-74 5.1E-79 617.7 38.5 372 107-496 1-433 (464)
3 COG1333 ResB ResB protein requ 100.0 1E-67 2.2E-72 547.9 23.4 378 107-495 1-422 (478)
4 PRK10369 heme lyase subunit Nr 98.1 4.7E-05 1E-09 83.7 15.4 73 250-341 418-490 (571)
5 TIGR00353 nrfE c-type cytochro 98.0 0.00012 2.6E-09 81.1 15.2 77 246-341 421-497 (576)
6 TIGR03145 cyt_nit_nrfE cytochr 97.5 0.00069 1.5E-08 75.7 12.3 77 246-341 478-554 (628)
7 COG1138 CcmF Cytochrome c biog 92.6 0.31 6.7E-06 54.6 7.4 61 246-322 486-546 (648)
8 TIGR00351 narI respiratory nit 51.9 9.6 0.00021 37.6 2.1 27 249-275 46-72 (224)
9 COG2181 NarI Nitrate reductase 39.9 16 0.00035 36.1 1.6 26 249-274 45-70 (228)
10 PF10808 DUF2542: Protein of u 37.3 28 0.00061 28.5 2.2 28 466-493 48-79 (79)
11 PF12911 OppC_N: N-terminal TM 37.2 17 0.00036 27.3 1.0 33 95-127 3-38 (56)
12 cd00255 nidG2 Nidogen, G2 doma 35.9 4.5E+02 0.0098 26.1 11.0 122 232-357 30-182 (224)
13 COG2034 Predicted membrane pro 33.0 41 0.00089 28.3 2.6 24 470-493 11-34 (85)
14 PF11669 WBP-1: WW domain-bind 31.3 34 0.00073 29.6 2.0 25 162-186 17-41 (102)
15 PF02665 Nitrate_red_gam: Nitr 29.3 33 0.00071 33.7 1.8 25 249-273 44-68 (222)
16 PF07474 G2F: G2F domain; Int 28.1 4.1E+02 0.0089 25.7 9.0 116 239-358 39-184 (192)
17 PF12751 Vac7: Vacuolar segreg 22.7 46 0.001 35.5 1.5 35 243-277 293-327 (387)
18 PF09879 DUF2106: Predicted me 22.5 99 0.0021 28.5 3.4 32 97-128 3-35 (153)
19 PF14221 DUF4330: Domain of un 21.1 6.7E+02 0.014 23.5 8.9 33 245-279 6-39 (168)
20 PRK10747 putative protoheme IX 20.6 35 0.00076 36.1 0.2 24 161-184 35-58 (398)
No 1
>CHL00177 ccs1 c-type cytochrome biogenensis protein; Validated
Probab=100.00 E-value=4.7e-92 Score=740.73 Aligned_cols=392 Identities=39% Similarity=0.746 Sum_probs=363.2
Q ss_pred cchHHHHHHHhcChhHHHHHHHHHHHHhheeEEeccCCCchhhhccCCCCCCCCccchHHHHHHhCCCcccccHHHHHHH
Q 010998 94 KRLPRRVLAALSNLPLAIGEMAAIAALMALGTAIEQGEVPDFYFQKYPEDNPVFGFFTWRWILTLGFDHMFSSPIFLGLL 173 (496)
Q Consensus 94 ~~~~r~i~~~LsSmklaI~LL~lLav~siiGTlipQ~~~~~~y~~~y~~~~p~lG~~~~~~i~~Lgl~~vYsSwWF~~Ll 173 (496)
++|++++|++|+|||+||+||++||++|++||+|||+++.++|.++||++.|.+|+.+|+++++|||+|||+||||.+|+
T Consensus 1 ~~~~~~~~~~l~Slr~ai~LL~~ia~~s~~GT~i~Q~~~~~~Y~~~yp~~~p~~G~~~~~~~~~LgL~~vY~s~WF~~ll 80 (426)
T CHL00177 1 KNMKQKLLKLLANLKFAIILLLLIAIFSVIGTIIEQDQSIEFYKNNYPLSNPIFGFLSWKIILKLGLDHIYKTWWFLSLL 80 (426)
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHHhheeEccCCCCHHHHHHhccccccccchhHHHHHHhcCCCccccCHHHHHHH
Confidence 46899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhhhhhhcCchhHHHHhhccccccChHhhhccCCccccchhhHHHHHHHHhhCCeEEEeecceEEEEcCcccchh
Q 010998 174 VMMGLSLMACTYTTQIPLVKVARRWSFLHSAEAIRKQEFSDTLPRASIQDLGVILMGAGYEVFLKGPSLYAFKGLVGRFA 253 (496)
Q Consensus 174 ~LL~inL~~Cti~R~~~~~k~~r~~~~~~~p~~~~~~~~~~~~~~~~~~~v~~~L~~~gyrv~~~~~~l~A~Kg~~~r~G 253 (496)
+||++||++||++|++|+||.+|+|+++++|++++|++.+.+++.+..+++++.|+++||+++++++.+||+||+++|+|
T Consensus 81 ~ll~isL~~Cs~~R~~p~lk~~r~~~~~~~~~~l~kl~~~~~~~~~~~~~~~~~L~~~gy~v~~~~~~l~A~KG~~gr~G 160 (426)
T CHL00177 81 LLFGLSLLLCTLLQQLPSLKIARRWQFYTNKNQFKKLQISTNLKKFSLSKLAYKLKSKNYSIFQQGNKIYAYKGLIGRIA 160 (426)
T ss_pred HHHHHHHhheeecccHHHHHHHhcCcccCChhHhhcCccccccchhHHHHHHHHHHHCCeEEEEeCcEEEEecCcchhhh
Confidence 99999999999999999999999999999999999999999998888999999999999999999999999999999999
Q ss_pred hHHHHHHHHHHHHhhhcccccceEEEEEEeCCceeeeccccCCCCCcCCCCCCcceEEEEccEEEEEecCCCeeeEEEEE
Q 010998 254 PIGVHLAMLLIMAGGTLSATGSFRGSVTVPQGLNFVVGDVLGPNGFLSTPTDAFSTEVHVNKFYMDYYDSGEVKQFHSDL 333 (496)
Q Consensus 254 ~~l~HlslvlILiG~llg~~~Gf~g~v~l~eGe~~~~~~~~~~g~~~~~~~~~~pf~i~l~~F~i~yy~~G~p~~f~Sdl 333 (496)
++++|+|||+||+|+++|+++||+|+++++|||++++.++..+|. .+.+++ ++|+||||+++||++|+|+||+|||
T Consensus 161 ~~lvHlslIvIL~Gal~g~l~G~~g~~~i~eGe~~~i~~~~~~g~-~~~l~~---~svrl~~F~i~y~~~g~p~qF~Sdl 236 (426)
T CHL00177 161 PIIVHFSMILILIGSILGALSGFTAQEIIPKTEIFHIQNIISSGQ-LSKIPQ---ESARVNDFWITYTPEKSIKQFYSDL 236 (426)
T ss_pred HHHHHHHHHHHHHHHHHhcccceEEEEEEcCCCceecccccCCCC-ccccCC---cEEEEeeEEEEEcCCCCcceEEEEE
Confidence 999999999999999999999999999999999998777655565 344444 3999999999999999999999999
Q ss_pred EEEecCCceeEEEEEEeCcceEECCeEEEEccCCCceeEEEeCCCcceEeecCccccCCCccEEEEeecCCCCCCCCCcc
Q 010998 334 SLFDIGGKEVMRKTISVNDPLRYGGITIYQTDWSFSALQVLKNDEGPFNLAMAPLKVNGDKKLFGTFLPLGDVNSPNVKG 413 (496)
Q Consensus 334 ti~~~~G~~v~~~~I~VN~PL~y~G~~~YQss~g~~~v~v~~~~~~~~~l~~~~~~~~g~~~~~~~~~P~~~~~~~~~~~ 413 (496)
++.|++|+++.+++|+|||||+|+|++|||+|||.++++++.+++..+++|+..++.+ ++++|++++|...+. ..+
T Consensus 237 si~d~~g~e~~~~tI~VN~PL~y~G~~iYQss~~~~~~~v~~~~~~~~~~pl~~~~~~-~~~~~~~~lP~~~~~---~~~ 312 (426)
T CHL00177 237 SILNSEGKEIKRKTISVNHPLKYKGLTIYQTDWNIIGLRIKIGNSKIIQIPLIKIENN-NNKIWLTWIPLNKQN---QSG 312 (426)
T ss_pred EEEcCCCCeeeeEEEEecCCEEECCEEEEEeccccccEEEEeCCCceEEEEeccccCC-CCeeEeeecCCCCCC---Ccc
Confidence 9998889899999999999999999999999999999999988877899999877554 477999999964322 245
Q ss_pred eeEEecCCc-eEEEEcCCCceeeeecCCCCCceeeCCeEEEEeeeeeeEEEEEeecCCchHHHHHHHHHHHHHhhhhccc
Q 010998 414 ISMLARDLQ-SIVIYDQEGKFTGVRRPNSKLPIDIDGTKIVIVDAIGSTGLDLKTDPGVPIVYAGFGALMLTTCISFLSH 492 (496)
Q Consensus 414 ~~~~~~d~~-~v~~~~~~g~~~~~~~l~~g~~i~l~g~~i~f~~~~~~tGLqVk~DPGvpiV~~Gf~Ll~lGL~lsf~sh 492 (496)
+.++.+|.+ ++.+||++|++++...+ |++.++++++++|++.+++|||||++|||+|+||+||++||+|+++||++|
T Consensus 313 ~~l~~~d~~~~~~~y~~~g~~~~~~~~--g~~~~~~~~~~~~~~~~~~TGLqi~~dPG~~~vy~G~~ll~lG~~~sy~~~ 390 (426)
T CHL00177 313 LTLVIKDLQGKISLYDNNGNFLGILEL--NEPINLNNTPITLIEIISSTGLQIKSDPGIPIIYVGFFLLMISILISYISY 390 (426)
T ss_pred EEEEEecCCcEEEEEcCCCcEeeEEec--CCcceecceEEEEEEEeecceEEEEcCCCCeehHHHHHHHHHHHheeeecc
Confidence 666788887 68899999999887666 788999999999999999999999999999999999999999999999999
Q ss_pred eec
Q 010998 493 TQT 495 (496)
Q Consensus 493 rqi 495 (496)
||+
T Consensus 391 ~~i 393 (426)
T CHL00177 391 SQI 393 (426)
T ss_pred eEE
Confidence 997
No 2
>PF05140 ResB: ResB-like family ; InterPro: IPR007816 This domain is found in a number of known and suspected cytochrome c biogenesis proteins, including ResB []. Mutations in ResB indicate that they are essential for growth []. ResB is predicted to be a transmembrane protein.
Probab=100.00 E-value=2.3e-74 Score=617.68 Aligned_cols=372 Identities=33% Similarity=0.514 Sum_probs=300.4
Q ss_pred hhHHHHHHHHHHHHhheeEEeccCCCchhhhccCCCCCCCCccchHHHHHHhCCCcccccHHHHHHHHHHHHHhhhhhhc
Q 010998 107 LPLAIGEMAAIAALMALGTAIEQGEVPDFYFQKYPEDNPVFGFFTWRWILTLGFDHMFSSPIFLGLLVMMGLSLMACTYT 186 (496)
Q Consensus 107 mklaI~LL~lLav~siiGTlipQ~~~~~~y~~~y~~~~p~lG~~~~~~i~~Lgl~~vYsSwWF~~Ll~LL~inL~~Cti~ 186 (496)
||+||+||++||++|++||+|||+++.++|.++| |+.+++|+++|||+||||||||++|++||++||++||++
T Consensus 1 mklai~Ll~~la~~s~iGt~ipQ~~~~~~y~~~~-------g~~~~~i~~~Lgl~~vy~S~wF~~ll~ll~~sL~~Cs~~ 73 (464)
T PF05140_consen 1 MKLAIFLLLLLAIASIIGTLIPQGQPPEFYQQNY-------GPFWGPIFDRLGLFDVYSSWWFLLLLVLLALSLIACSID 73 (464)
T ss_pred CcHHHHHHHHHHHHHhceeeecCCCcHHHHHHHh-------CchHHHHHHHcCCCceEecHHHHHHHHHHHHHHHHHHHH
Confidence 7999999999999999999999999999999999 778899999999999999999999999999999999999
Q ss_pred CchhHHHHhhccccccChHhhhccCCccccc-----hhhHHHHHHHHhhCCeEEEeecc----eEEEEcCcccchhhHHH
Q 010998 187 TQIPLVKVARRWSFLHSAEAIRKQEFSDTLP-----RASIQDLGVILMGAGYEVFLKGP----SLYAFKGLVGRFAPIGV 257 (496)
Q Consensus 187 R~~~~~k~~r~~~~~~~p~~~~~~~~~~~~~-----~~~~~~v~~~L~~~gyrv~~~~~----~l~A~Kg~~~r~G~~l~ 257 (496)
|++++||.+|+++....++.+++++.+.+++ ++..+++++.|+++||||.++++ .+||+||+|++||++++
T Consensus 74 R~~~~~k~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~~gyrv~~~~~~~~~~l~a~kg~~~~~G~~l~ 153 (464)
T PF05140_consen 74 RLPPLWKALRRPPPPKPARFLKRMPLSATFPVPGDPEEALERLAALLKKKGYRVRRQEDGGGVFLYAEKGRWGRWGSLLF 153 (464)
T ss_pred HHHHHHHHHcCCCCCCChhHhhcCCceEEEEcCCChHHHHHHHHHHHHhCCcEEEEecCCCcEEEEEEcCcchhhhHHHH
Confidence 9999999999998888888899999988864 67789999999999999988765 49999999999999999
Q ss_pred HHHHHHHHHhhhcccccceEEEEEEeCCceeeecccc-CCCCCcCCCCCCcceEEEEccEEEEEecCCCeeeEEEEEEEE
Q 010998 258 HLAMLLIMAGGTLSATGSFRGSVTVPQGLNFVVGDVL-GPNGFLSTPTDAFSTEVHVNKFYMDYYDSGEVKQFHSDLSLF 336 (496)
Q Consensus 258 HlslvlILiG~llg~~~Gf~g~v~l~eGe~~~~~~~~-~~g~~~~~~~~~~pf~i~l~~F~i~yy~~G~p~~f~Sdlti~ 336 (496)
|+|||+||+|+++++++||+|++.++|||+++..... ..|.++ ...||+++||+|+++||++|+|++|+|||++.
T Consensus 154 Hlslivil~G~~~~~~~g~~g~~~l~eG~~~~~~~~~~~~g~~~----~~~~f~i~l~~F~~~~~~~g~~~~~~S~v~i~ 229 (464)
T PF05140_consen 154 HLSLIVILIGALLGSLFGFRGQVMLPEGETFDIPYDSFESGPLF----QPLPFSIRLDDFTIEYYPNGSPKQYASDVTIL 229 (464)
T ss_pred HHHHHHHHHHHHhhcccceeEEEEEecCCccccccccccccccc----cccceEEEEeeEEEEecccccccceEEEEEEE
Confidence 9999999999999999999999999999998765432 234322 34688999999999999999999999999999
Q ss_pred ecCCceeEEEEEEeCcceEECCeEEEEccCCCce-eEEEeCCCc-------ceEeec---CccccCCCc----c-EEEEe
Q 010998 337 DIGGKEVMRKTISVNDPLRYGGITIYQTDWSFSA-LQVLKNDEG-------PFNLAM---APLKVNGDK----K-LFGTF 400 (496)
Q Consensus 337 ~~~G~~v~~~~I~VN~PL~y~G~~~YQss~g~~~-v~v~~~~~~-------~~~l~~---~~~~~~g~~----~-~~~~~ 400 (496)
+++|+++++++|+|||||+|+|++|||+||| ++ .+++...+. ...++. ......+.. . ....+
T Consensus 230 ~~~~~~~~~~~I~VN~Pl~~~G~~~YQss~~-~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ 308 (464)
T PF05140_consen 230 DGGGGEVKRATISVNHPLRYKGYRFYQSSYG-APGFTVTDTSGKLIFDSGQPQFLPQVPGDSISLPGGYQDGYQLQFWDF 308 (464)
T ss_pred cCCCCcceeEEEEecccEEECCEEEEeccCC-CCceEEEecCCcccccccccccccccccceecccccCCCccEEEEEEE
Confidence 9765889999999999999999999999999 76 355543322 112222 111111111 1 12334
Q ss_pred ecCCCCC-------CCCCcceeEEecCCceEEEEcCCC--------ceeeeecCCCCCceeeCCe---------------
Q 010998 401 LPLGDVN-------SPNVKGISMLARDLQSIVIYDQEG--------KFTGVRRPNSKLPIDIDGT--------------- 450 (496)
Q Consensus 401 ~P~~~~~-------~~~~~~~~~~~~d~~~v~~~~~~g--------~~~~~~~l~~g~~i~l~g~--------------- 450 (496)
+|..... ++.+.+|++ .+.++++++ +.+.......++++..+++
T Consensus 309 ~~~~~~~~~g~~~~s~~~~nPa~------~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 382 (464)
T PF05140_consen 309 FPDFVPNDNGPPSKSPDPNNPAV------VLEVYDGDGGVDGSGEPQNVYFLNVPEGEQIAVGGYNQQAFNLMGLFLLPG 382 (464)
T ss_pred EcccccccCCCcccCCCCCCceE------EEEEECCCCcceeccccceeEEecCcccchhhcccchhhhhcccccccCCC
Confidence 4432111 122333433 244555432 2223333433444445555
Q ss_pred --EEEEeeee--eeEEEEEeecCCchHHHHHHHHHHHHHhhh-hccceecC
Q 010998 451 --KIVIVDAI--GSTGLDLKTDPGVPIVYAGFGALMLTTCIS-FLSHTQTI 496 (496)
Q Consensus 451 --~i~f~~~~--~~tGLqVk~DPGvpiV~~Gf~Ll~lGL~ls-f~shrqi~ 496 (496)
+++|++.+ +||||||++|||+|+||+||+++|+||+++ |++|||+.
T Consensus 383 ~~~v~~~~~~~~~~tGLqV~~DPG~~~V~~G~~llv~Gl~~sfy~~hRRvW 433 (464)
T PF05140_consen 383 PYRVTFDGFRQRYYTGLQVKKDPGVPIVYLGFILLVVGLFLSFYIRHRRVW 433 (464)
T ss_pred ceEEEEEEeccceEEEEEEEeCCCchHHHHHHHHHHHHHHHhheecceEEE
Confidence 89999777 899999999999999999999999999999 57999973
No 3
>COG1333 ResB ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1e-67 Score=547.90 Aligned_cols=378 Identities=29% Similarity=0.437 Sum_probs=295.7
Q ss_pred hhHHHHHHHHHHHHhheeEEeccC---CCchhhhccCCCCCCCCccchHHHHHHhCCCcccccHHHHHHHHHHHHHhhhh
Q 010998 107 LPLAIGEMAAIAALMALGTAIEQG---EVPDFYFQKYPEDNPVFGFFTWRWILTLGFDHMFSSPIFLGLLVMMGLSLMAC 183 (496)
Q Consensus 107 mklaI~LL~lLav~siiGTlipQ~---~~~~~y~~~y~~~~p~lG~~~~~~i~~Lgl~~vYsSwWF~~Ll~LL~inL~~C 183 (496)
||+||+||++||++|++||++||+ ++.+.|..++ |+++|+|++.|||+|||+||||++|++||++||++|
T Consensus 1 mr~AI~LL~llaiaSi~GTvl~Q~~~N~~~~~y~~~f-------g~~~gq~~~~Lgl~~Vy~SwWfl~iivlL~VSLv~C 73 (478)
T COG1333 1 MRLAIALLLLLAIASIPGTVLPQRGLNQPYPDYYAEF-------GGLWGQWIDQLGLFDVYSSWWFLAIIVLLGVSLVGC 73 (478)
T ss_pred ChhHHHHHHHHHHHhcccceeeccccCCCCcchHHHh-------CchHHHHHHHhccchHHHHHHHHHHHHHHHHHHHhh
Confidence 799999999999999999999995 4444444444 667889999999999999999999999999999999
Q ss_pred hhcCchhHHHHhhccccccChHhhhccCCccccc-----hhhHHHHHHHHhhCCeEEEee-cceEEEEcCcccchhhHHH
Q 010998 184 TYTTQIPLVKVARRWSFLHSAEAIRKQEFSDTLP-----RASIQDLGVILMGAGYEVFLK-GPSLYAFKGLVGRFAPIGV 257 (496)
Q Consensus 184 ti~R~~~~~k~~r~~~~~~~p~~~~~~~~~~~~~-----~~~~~~v~~~L~~~gyrv~~~-~~~l~A~Kg~~~r~G~~l~ 257 (496)
+++|+++++|++| +++...|++++|++++.+++ +++.++++..|+++||+++++ +.+++||||+.+|||++++
T Consensus 74 ~lpr~~~~~ra~r-~~~~~~p~~l~r~~h~~~~~v~~~~~~~~~~i~~~L~~~~~kir~e~~~~i~AeKG~~~r~G~ii~ 152 (478)
T COG1333 74 SLPRFPALYRALR-AKPVRAPRNLARLRHSAELDVKIDPEAVKAKIEKLLRGKGYKIREEGSVSIAAEKGRFSRWGPIIF 152 (478)
T ss_pred cccccHHHHHHhh-cccccCchhHHhhhccCccccCCchHHHHHHHHHHHhcCCeEEEeccceeEEeccccccchhhHHH
Confidence 9999999999887 56789999999999998863 447889999999999999988 6799999999999999999
Q ss_pred HHHHHHHHHhhhcc-cccceEEEEEEeCCcee-----eeccccCCCCCcCCCCCCcceEEEEccEEEEEecCCCeeeEEE
Q 010998 258 HLAMLLIMAGGTLS-ATGSFRGSVTVPQGLNF-----VVGDVLGPNGFLSTPTDAFSTEVHVNKFYMDYYDSGEVKQFHS 331 (496)
Q Consensus 258 HlslvlILiG~llg-~~~Gf~g~v~l~eGe~~-----~~~~~~~~g~~~~~~~~~~pf~i~l~~F~i~yy~~G~p~~f~S 331 (496)
|+|||+||+|++++ .+.|+....+|++||+. ...+.++.|..++. ....||++++|+|.++|+++|++++|+|
T Consensus 153 HiaLliil~Gal~~~~~~Gm~~~~~V~~Ge~~~~~lpa~~~~fr~g~~~~~-~~l~~f~v~v~rf~~dy~~~g~~~~f~s 231 (478)
T COG1333 153 HIALLIILVGALLDFFYEGMVVGEIVPDGETNCSALPAANDKFRAGPTADG-TILLPFCVRVNRFGIDYLPTGQAYSFAS 231 (478)
T ss_pred HHHHHHHHHHHHHhhcccceeEeEEecCCCcccccccccccccccCCccce-eeeehHHHHHHhcccccccccchhhhcC
Confidence 99999999999999 68899988899999998 22344555664443 2346899999999999999999999999
Q ss_pred EEEEEecCCceeEEEEEEeCcceEECCeEEEEccCCCceeEEEeCCCcceEeecC---------c----cc-cCCC-ccE
Q 010998 332 DLSLFDIGGKEVMRKTISVNDPLRYGGITIYQTDWSFSALQVLKNDEGPFNLAMA---------P----LK-VNGD-KKL 396 (496)
Q Consensus 332 dlti~~~~G~~v~~~~I~VN~PL~y~G~~~YQss~g~~~v~v~~~~~~~~~l~~~---------~----~~-~~g~-~~~ 396 (496)
|+++.|.+++++.+++|+|||||+|+|++|||.+||.++........+..+.|.. . .+ .+|. ..+
T Consensus 232 dI~v~~~~~~~~~~~~IrVN~PLr~~G~~vYq~d~G~~~~~t~~~~~~~~rt~~~~~~~~~~~~~l~~~fd~~~G~~v~i 311 (478)
T COG1333 232 DISVTDGQGEEVAEYTIRVNHPLRYGGVRVYQADYGIAPTFTVTFPLGATRTPTVLWRTDIPQTLLSSVFDPPNGMKVAI 311 (478)
T ss_pred CceEEcCCcceeeeeeEEccCCEeecceEEEEecCccccceeEeccCcccccccccccccccccCccceecCCCcceEEe
Confidence 9999997789999999999999999999999999999985333211111111110 0 11 1222 235
Q ss_pred EEEeecCCCCCCCCCcceeEEecCCc-eEEEEc-------CCCceee--eecCCCCCceeeCC---eEEEEeeeeeeEEE
Q 010998 397 FGTFLPLGDVNSPNVKGISMLARDLQ-SIVIYD-------QEGKFTG--VRRPNSKLPIDIDG---TKIVIVDAIGSTGL 463 (496)
Q Consensus 397 ~~~~~P~~~~~~~~~~~~~~~~~d~~-~v~~~~-------~~g~~~~--~~~l~~g~~i~l~g---~~i~f~~~~~~tGL 463 (496)
++.+.|+...... ++++...++.+ ++.++| .++.... ...+.+|++..+++ +++.|.+...+|||
T Consensus 312 ~g~~~Pt~~~~~~--~~~s~~~k~~~~Pav~~d~~~~~l~~~~~l~~~~rv~~~~g~~~~v~~~~~~~~~~~~~~~ftgl 389 (478)
T COG1333 312 QGLLIPTKQLNGR--NGLSSRFKNLNAPAVIIDIYRGRLTASGPLGEIERVALQAGQEVLVNDGPETKVGFLEAVGFTGL 389 (478)
T ss_pred eccccCceeeccc--ccccccccccCCCEEEeehhhhhcccccccchhhhhhhccCceeeccCCcceeeeccccccccce
Confidence 6667785321110 11121122222 233344 3333322 12444677777765 35899999999999
Q ss_pred EEeecCCchHHHHHHHHHHHHHhhhhc-cceec
Q 010998 464 DLKTDPGVPIVYAGFGALMLTTCISFL-SHTQT 495 (496)
Q Consensus 464 qVk~DPGvpiV~~Gf~Ll~lGL~lsf~-shrqi 495 (496)
||++|||.||||.|++++|+|++.+++ .|||+
T Consensus 390 qV~~Dp~~~~v~vg~~i~Mvglv~s~~~~~rrv 422 (478)
T COG1333 390 QVSKDPGQPWVYVGGAILMVGLVQSLYWRHRRV 422 (478)
T ss_pred eeccCCCCceehHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999976 45564
No 4
>PRK10369 heme lyase subunit NrfE; Provisional
Probab=98.13 E-value=4.7e-05 Score=83.75 Aligned_cols=73 Identities=14% Similarity=0.175 Sum_probs=56.4
Q ss_pred cchhhHHHHHHHHHHHHhhhcccccceEEEEEEeCCceeeeccccCCCCCcCCCCCCcceEEEEccEEEEEecCCCeeeE
Q 010998 250 GRFAPIGVHLAMLLIMAGGTLSATGSFRGSVTVPQGLNFVVGDVLGPNGFLSTPTDAFSTEVHVNKFYMDYYDSGEVKQF 329 (496)
Q Consensus 250 ~r~G~~l~HlslvlILiG~llg~~~Gf~g~v~l~eGe~~~~~~~~~~g~~~~~~~~~~pf~i~l~~F~i~yy~~G~p~~f 329 (496)
+++|.++.|+|+.++++|.+.++.++.+.++.+.+||+..++ +|+++.++.+.+-.+|- ...
T Consensus 418 ~~~g~~laH~Gval~~~Gi~~ss~~~~e~~~~l~~G~~~~~~----------------~y~~~~~~~~~~~~~n~--~~~ 479 (571)
T PRK10369 418 VQLPALLAHAGVLLFAAGIVVSSVSRQEISLNLQPGQQVTLA----------------GYTFRFERLDLQAKGNY--TSE 479 (571)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhcccceeEEEEECCCCcEEEe----------------cEEEEEeeeeeccCCCc--eeE
Confidence 468999999999999999999999999999999999987653 24788888766544443 333
Q ss_pred EEEEEEEecCCc
Q 010998 330 HSDLSLFDIGGK 341 (496)
Q Consensus 330 ~Sdlti~~~~G~ 341 (496)
++++++.+ ||+
T Consensus 480 ~a~~~v~~-~g~ 490 (571)
T PRK10369 480 KAIIALFR-HQQ 490 (571)
T ss_pred EEEEEEEE-CCE
Confidence 46677765 554
No 5
>TIGR00353 nrfE c-type cytochrome biogenesis protein CcmF. The product of this gene is required for the biogenesis of C-type cytochromes. This gene is thought to have eleven transmembrane helices. Disruption of this gene in Paracoccus denitrificans, encoding a putative transporter, results in formation of an unstable apocytochrome c and deficiency in siderophore production.
Probab=97.99 E-value=0.00012 Score=81.06 Aligned_cols=77 Identities=16% Similarity=0.102 Sum_probs=60.0
Q ss_pred cCcccchhhHHHHHHHHHHHHhhhcccccceEEEEEEeCCceeeeccccCCCCCcCCCCCCcceEEEEccEEEEEecCCC
Q 010998 246 KGLVGRFAPIGVHLAMLLIMAGGTLSATGSFRGSVTVPQGLNFVVGDVLGPNGFLSTPTDAFSTEVHVNKFYMDYYDSGE 325 (496)
Q Consensus 246 Kg~~~r~G~~l~HlslvlILiG~llg~~~Gf~g~v~l~eGe~~~~~~~~~~g~~~~~~~~~~pf~i~l~~F~i~yy~~G~ 325 (496)
|...+++|.++.|+|+.++++|.+.++.++.+....+.+||+..++ +|+++.++.+....||..
T Consensus 421 ~~~~~~~g~~laH~Gval~~~Gi~~ss~~~~e~~~~L~pGet~~~~----------------~y~~~y~~~~~~~gpn~~ 484 (576)
T TIGR00353 421 KIKRSQWGMLLAHLGVALTAAGIVFSQNFSVEIDVRLKPGQSVTLG----------------GYTFRFRCVDLEAGPNYT 484 (576)
T ss_pred cCChhhhhhhhhHHHHHHHHHHHHHHcccceeEEEEECCCCcEEEc----------------CEEEEEeeeeecCCCCce
Confidence 3446789999999999999999999999999999999999987653 358888888776655554
Q ss_pred eeeEEEEEEEEecCCc
Q 010998 326 VKQFHSDLSLFDIGGK 341 (496)
Q Consensus 326 p~~f~Sdlti~~~~G~ 341 (496)
. -++++++.+ ||+
T Consensus 485 a--~~a~~~V~k-~g~ 497 (576)
T TIGR00353 485 G--EKAIIDVTK-DGQ 497 (576)
T ss_pred E--EEEEEEEEE-CCE
Confidence 3 346666654 554
No 6
>TIGR03145 cyt_nit_nrfE cytochrome c nitrate reductase biogenesis protein NrfE. Members of this protein family closely resemble the CcmF protein of the CcmABCDEFGH system, or system I, for c-type cytochrome biogenesis (GenProp0678). Members are found, as a rule, next to closely related paralogs of CcmG and CcmH and always located near other genes associated with the cytochrome c nitrite reductase enzyme complex. As a rule, members are found in species that also encode bona fide members of the CcmF, CcmG, and CcmH families.
Probab=97.54 E-value=0.00069 Score=75.72 Aligned_cols=77 Identities=13% Similarity=0.072 Sum_probs=59.4
Q ss_pred cCcccchhhHHHHHHHHHHHHhhhcccccceEEEEEEeCCceeeeccccCCCCCcCCCCCCcceEEEEccEEEEEecCCC
Q 010998 246 KGLVGRFAPIGVHLAMLLIMAGGTLSATGSFRGSVTVPQGLNFVVGDVLGPNGFLSTPTDAFSTEVHVNKFYMDYYDSGE 325 (496)
Q Consensus 246 Kg~~~r~G~~l~HlslvlILiG~llg~~~Gf~g~v~l~eGe~~~~~~~~~~g~~~~~~~~~~pf~i~l~~F~i~yy~~G~ 325 (496)
|...+++|.++.|+|+.++++|.+.++.++.+-++.+.+||+..++ +|+++.++.+..-.||..
T Consensus 478 ~~~~~~~G~~laH~Gval~~~Gi~~ss~~~~e~~~~l~~Ge~~~~~----------------~y~~~~~~~~~~~~pn~~ 541 (628)
T TIGR03145 478 TLKLRQLGMVLAHLGVAICAIGAIMVSYFGSEIGVRLAPQQQQPLG----------------GYEFRYQGFENVIGPNYT 541 (628)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHhccccceeEEEECCCCeEEEc----------------CEEEEEeeceecCCCCce
Confidence 3446789999999999999999999999999999999999987553 247887877665555543
Q ss_pred eeeEEEEEEEEecCCc
Q 010998 326 VKQFHSDLSLFDIGGK 341 (496)
Q Consensus 326 p~~f~Sdlti~~~~G~ 341 (496)
..++++++.+ ||+
T Consensus 542 --~~~a~~~v~~-~g~ 554 (628)
T TIGR03145 542 --AEQANFSVTK-NGK 554 (628)
T ss_pred --eEEEEEEEEE-CCE
Confidence 3456777765 554
No 7
>COG1138 CcmF Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]
Probab=92.60 E-value=0.31 Score=54.59 Aligned_cols=61 Identities=15% Similarity=0.163 Sum_probs=51.5
Q ss_pred cCcccchhhHHHHHHHHHHHHhhhcccccceEEEEEEeCCceeeeccccCCCCCcCCCCCCcceEEEEccEEEEEec
Q 010998 246 KGLVGRFAPIGVHLAMLLIMAGGTLSATGSFRGSVTVPQGLNFVVGDVLGPNGFLSTPTDAFSTEVHVNKFYMDYYD 322 (496)
Q Consensus 246 Kg~~~r~G~~l~HlslvlILiG~llg~~~Gf~g~v~l~eGe~~~~~~~~~~g~~~~~~~~~~pf~i~l~~F~i~yy~ 322 (496)
+-..+.+|..+.|++++++++|+++++.++++-.+.+.+|++..+. .+++++++++.+..|
T Consensus 486 ~~~~s~~g~~LaH~Gv~l~~~Gi~~s~~~~~E~~v~l~~G~~~~l~----------------~y~~~~~~~~~~~gp 546 (648)
T COG1138 486 ALKRSAWGMVLAHLGVALIAVGIAMSSTYRYEREVRLRPGQSVTLA----------------GYTFTLDDVDIAQGP 546 (648)
T ss_pred cCChhHHHHHHHHhhHHHhhhhhheehhhhheeeEEecCCceEEee----------------eEEEEEeeeeeccCC
Confidence 3446789999999999999999999999999999999999987653 247888888776544
No 8
>TIGR00351 narI respiratory nitrate reductase, gamma subunit. Involved in anerobic respiration the gene product catalyzes the reaction (reduced acceptor + NO3- = Acceptor + nitrite). Another possible role_id for this gene product is in nitrogen fixation (Role_id:160).
Probab=51.86 E-value=9.6 Score=37.63 Aligned_cols=27 Identities=19% Similarity=0.138 Sum_probs=23.5
Q ss_pred ccchhhHHHHHHHHHHHHhhhcccccc
Q 010998 249 VGRFAPIGVHLAMLLIMAGGTLSATGS 275 (496)
Q Consensus 249 ~~r~G~~l~HlslvlILiG~llg~~~G 275 (496)
+-+||+.++|.|++++++|.++|-+.-
T Consensus 46 ~l~~gs~lFH~gil~v~~gH~~g~l~p 72 (224)
T TIGR00351 46 GMNLASNLFHIGILGIFVGHFFGMLTP 72 (224)
T ss_pred cHHhhHHHHHHHHHHHHHHHHHHhccc
Confidence 567999999999999999999976544
No 9
>COG2181 NarI Nitrate reductase gamma subunit [Energy production and conversion]
Probab=39.85 E-value=16 Score=36.10 Aligned_cols=26 Identities=15% Similarity=0.199 Sum_probs=23.3
Q ss_pred ccchhhHHHHHHHHHHHHhhhccccc
Q 010998 249 VGRFAPIGVHLAMLLIMAGGTLSATG 274 (496)
Q Consensus 249 ~~r~G~~l~HlslvlILiG~llg~~~ 274 (496)
+-++|+.+||.|++++++|..+|-+.
T Consensus 45 ~L~~gs~lFH~GIl~v~~gH~~gll~ 70 (228)
T COG2181 45 GLWIGSNLFHIGILLVLLGHAIGLLT 70 (228)
T ss_pred ceeecCchHHHHHHHHHHHHHhheeC
Confidence 45689999999999999999999875
No 10
>PF10808 DUF2542: Protein of unknown function (DUF2542) ; InterPro: IPR020155 This entry represents transmembrane proteins with no known function.; GO: 0016021 integral to membrane
Probab=37.27 E-value=28 Score=28.52 Aligned_cols=28 Identities=32% Similarity=0.401 Sum_probs=21.9
Q ss_pred eecCCchH----HHHHHHHHHHHHhhhhccce
Q 010998 466 KTDPGVPI----VYAGFGALMLTTCISFLSHT 493 (496)
Q Consensus 466 k~DPGvpi----V~~Gf~Ll~lGL~lsf~shr 493 (496)
.+||++-| +|+||..+.+|+++.+..+|
T Consensus 48 ~~~P~~ywsYi~~Y~G~gil~~gm~IyllFyR 79 (79)
T PF10808_consen 48 AKNPGQYWSYIFAYFGCGILSLGMIIYLLFYR 79 (79)
T ss_pred cCCcchhHHHHHHHHHHHHHHHHHhheeEEeC
Confidence 46788765 57899999999999876554
No 11
>PF12911 OppC_N: N-terminal TM domain of oligopeptide transport permease C
Probab=37.24 E-value=17 Score=27.32 Aligned_cols=33 Identities=12% Similarity=0.035 Sum_probs=23.0
Q ss_pred chHHHHHHHhcChhHHHH---HHHHHHHHhheeEEe
Q 010998 95 RLPRRVLAALSNLPLAIG---EMAAIAALMALGTAI 127 (496)
Q Consensus 95 ~~~r~i~~~LsSmklaI~---LL~lLav~siiGTli 127 (496)
..++.+|+.|.+-|+|++ +++++.+++++|.++
T Consensus 3 s~~~~~~~~f~~nk~a~~gl~il~~~vl~ai~~p~~ 38 (56)
T PF12911_consen 3 SPWKDAWRRFRRNKLAVIGLIILLILVLLAIFAPFI 38 (56)
T ss_pred CHHHHHHHHHHhCchHHHHHHHHHHHHHHHHHHHHc
Confidence 567889999988887765 455556666777544
No 12
>cd00255 nidG2 Nidogen, G2 domain; Nidogen is an important component of the basement membrane, an extracellular sheet-like matrix. Nidogen is a multifunctional protein that interacts with many other basement membrane proteins, like collagen, perlecan, lamin, and has a potential role in the assembly and connection of networks. Nidogen consists of 3 globular domains (G1-G3), G3 is the lamin-binding domain, while G2 binds collagen IV and perlecan. Also found in hemicentin, a protein which functions at various cell-cell and cell-matrix junctions and might assist in refining broad regions of cell contact into oriented, line-shaped junctions. Nidogen G2 consists of an N-terminal EGF-like domain (excluded from this alignment model) and an 11-stranded beta-barrel with a central helix, a topology that exhibits high structural similarity to the green flourescent proteins of Cnidaria.
Probab=35.87 E-value=4.5e+02 Score=26.11 Aligned_cols=122 Identities=17% Similarity=0.151 Sum_probs=66.7
Q ss_pred CeEEEeecceEEEEcCcccchhhHHHHHHHHHHHHhhhc--------------ccccceEEEEEEeC-Cceeeecccc--
Q 010998 232 GYEVFLKGPSLYAFKGLVGRFAPIGVHLAMLLIMAGGTL--------------SATGSFRGSVTVPQ-GLNFVVGDVL-- 294 (496)
Q Consensus 232 gyrv~~~~~~l~A~Kg~~~r~G~~l~HlslvlILiG~ll--------------g~~~Gf~g~v~l~e-Ge~~~~~~~~-- 294 (496)
.|-|..|+....|-...-..+|+-+-=+.-++-.+|.+. |+.|-.+.++.... ||.+.+...+
T Consensus 30 syVv~~dGR~ytais~ip~~~G~~L~~l~~ig~~igWlFA~e~~~~~NGfslTGG~F~~~~~v~F~~~ge~l~I~Q~~~G 109 (224)
T cd00255 30 SYVVTSDGRAYTAISNIPESLGPSLRPLAPIGGTIGWLFALEQGGAKNGFSLTGGEFTRQAEVTFYTGGEKLRITQVARG 109 (224)
T ss_pred EEEEecCCeEEEEEecCChHhchhhhhhhhhcCceeeEEEeecCCccCcEeccCceEEEEEEEEEcCCCEEEEEEEEEec
Confidence 355556677777766666666666554444444433332 11233334555556 7766554321
Q ss_pred ------------CCCCCcCCCCCCcceEEEEccEEEEEecC--CCeeeEEEEEEEEecCCceeEEEEEEeCcceEEC
Q 010998 295 ------------GPNGFLSTPTDAFSTEVHVNKFYMDYYDS--GEVKQFHSDLSLFDIGGKEVMRKTISVNDPLRYG 357 (496)
Q Consensus 295 ------------~~g~~~~~~~~~~pf~i~l~~F~i~yy~~--G~p~~f~Sdlti~~~~G~~v~~~~I~VN~PL~y~ 357 (496)
-+|. .-.+|. +.+|+++|++-+|... |....+.|..-.++++ .+.....-.+||-..|+
T Consensus 110 lD~~~~L~~~~~i~G~-vP~i~~--~a~v~i~dY~E~Y~~t~pg~l~s~str~~~v~~~-~~~~~~~y~~~Q~I~y~ 182 (224)
T cd00255 110 LDSHGHLLLDTVISGR-VPQVPA--GATVHIEDYTELYHYTGPGVLTSSSTREYTVDEG-GESQTLSYQWNQTITYE 182 (224)
T ss_pred cCccCeEEEEEEEEee-cCCCCC--CCeEEeCCCeeeEEEcCCCEEEEEEeeEEEEecC-CCceEEeEEeeeEEEEe
Confidence 1233 112343 4599999999999543 6777777776555533 33344455555555443
No 13
>COG2034 Predicted membrane protein [Function unknown]
Probab=32.95 E-value=41 Score=28.27 Aligned_cols=24 Identities=21% Similarity=0.452 Sum_probs=21.2
Q ss_pred CchHHHHHHHHHHHHHhhhhccce
Q 010998 470 GVPIVYAGFGALMLTTCISFLSHT 493 (496)
Q Consensus 470 GvpiV~~Gf~Ll~lGL~lsf~shr 493 (496)
|..++++||.+..+|+.+.++++.
T Consensus 11 g~~li~iGf~LifLGi~l~~~~~~ 34 (85)
T COG2034 11 GLILIFIGFLLIFLGIVLPAFSPF 34 (85)
T ss_pred hhHHHHHHHHHHHHHHHHHhcCCc
Confidence 678899999999999999988764
No 14
>PF11669 WBP-1: WW domain-binding protein 1; InterPro: IPR021684 This family of proteins represents WBP-1, a ligand of the WW domain of Yes-associated protein. This protein has a proline-rich domain. WBP-1 does not bind to the SH3 domain [].
Probab=31.33 E-value=34 Score=29.63 Aligned_cols=25 Identities=16% Similarity=0.176 Sum_probs=17.9
Q ss_pred cccccHHHHHHHHHHHHHhhhhhhc
Q 010998 162 HMFSSPIFLGLLVMMGLSLMACTYT 186 (496)
Q Consensus 162 ~vYsSwWF~~Ll~LL~inL~~Cti~ 186 (496)
..|..|||.++++++.+-..+|+..
T Consensus 17 ~~~~~w~FWlv~~liill~c~c~~~ 41 (102)
T PF11669_consen 17 YYYELWYFWLVWVLIILLSCCCACR 41 (102)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4688899999877776655566553
No 15
>PF02665 Nitrate_red_gam: Nitrate reductase gamma subunit; InterPro: IPR003816 The nitrate reductase enzyme (1.7.99.4 from EC) is composed of three subunits; an alpha, a beta and two gamma. It is the second nitrate reductase enzyme which it can substitute for the NRA enzyme in Escherichia coli allowing it to use nitrate as an electron acceptor during anoerobic respiration []. Nitrate reductase gamma subunit resembles cytochrome b and transfers electrons from quinones to the beta subunit [].; GO: 0008940 nitrate reductase activity, 0055114 oxidation-reduction process, 0009325 nitrate reductase complex; PDB: 1Y5L_C 3IR5_C 1Y5I_C 1Y5N_C 1Y4Z_C 3IR6_C 3IR7_C 1SIW_C 3EGW_C 1Q16_C.
Probab=29.34 E-value=33 Score=33.71 Aligned_cols=25 Identities=16% Similarity=0.195 Sum_probs=21.5
Q ss_pred ccchhhHHHHHHHHHHHHhhhcccc
Q 010998 249 VGRFAPIGVHLAMLLIMAGGTLSAT 273 (496)
Q Consensus 249 ~~r~G~~l~HlslvlILiG~llg~~ 273 (496)
+-+||.+++|.|++++++|.+++.+
T Consensus 44 ~L~~~s~lfH~Gil~v~~gH~~gll 68 (222)
T PF02665_consen 44 WLWWGSYLFHWGILLVFFGHVVGLL 68 (222)
T ss_dssp THHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ceeehHHHHHHHHHHHHHHHHHHHh
Confidence 4569999999999999999887654
No 16
>PF07474 G2F: G2F domain; InterPro: IPR006605 Basement membranes are sheet-like extracellular matrices found at the basal surfaces of epithelia and condensed mesenchyma. By preventing cell mixing and providing a cell-adhesive substrate, they play crucial roles in tissue development and function. Basement menbranes are composed of an evolutionarily ancient set of large glycoproteins, which includes members of the laminin family, collagen IV, perlecan and nidogen/entactin. Nidogen/entactin is an important basement membrane component, which promotes cell attachment, neutrophil chemotaxis, trophoblast outgrowth, and angiogenesis. It consists of three globular regions, G1-G3. G1 and G2 are connected by a thread-like structure, whereas that between G2 and G3 is rod-like [, ]. The nidogen G2 region binds to collagen IV and perlecan. The nidogen G2 structure is composed of two domains, an N-terminal EGF-like domain and a much larger beta-barrel domain of ~230 residues. The nidogen G2 beta-barrel consists of an 11-stranded beta-barrel of complex topology, the interior of which is traversed by the hydrophobic, predominantly alpha helical segment connecting strands C and D. The N-terminal half of the barrel comprises two beta-meanders (strands A-C and D-F) linked by the buried alpha-helical segment. The polypeptide chain then crosses the bottom of the barrel and forms a five-stranded Greek key motif in the C- terminal half of the domain. Helix alpha3 caps the top of the barrel and forms the interface to the EGF-like domain. The nidogen G2 beta-barrel domain has unexpected structural similarity to green fluorescent protein, suggesting that they derive from a common ancestor. A large surface patch on the barrel surface is strikingly conserved in all metazoan nidogens. Site-directed mutagenesis demonstrates that the conserved residues in the conserved patch are involved in the binding of perlecan, and possibly also of collagen IV [].; PDB: 1GL4_A 1H4U_A.
Probab=28.14 E-value=4.1e+02 Score=25.74 Aligned_cols=116 Identities=14% Similarity=0.174 Sum_probs=62.9
Q ss_pred cceEEEEcCcccchhhHHHHHHHHHHHHhhhc--------------ccccceEEEEEEeCCceeeecccc---C------
Q 010998 239 GPSLYAFKGLVGRFAPIGVHLAMLLIMAGGTL--------------SATGSFRGSVTVPQGLNFVVGDVL---G------ 295 (496)
Q Consensus 239 ~~~l~A~Kg~~~r~G~~l~HlslvlILiG~ll--------------g~~~Gf~g~v~l~eGe~~~~~~~~---~------ 295 (496)
+..-.|-...-..+|+.+-=+..++-.+|.+. |+.|-.+.++....||.+.+...+ +
T Consensus 39 gr~ytaIs~IP~~~G~~l~~L~~ig~~igWlfA~e~~~a~NGfslTGG~F~~~s~v~F~tGe~l~itq~~~GlD~~~~L~ 118 (192)
T PF07474_consen 39 GRAYTAISNIPPSVGPSLRPLVPIGGPIGWLFAKEQGGAQNGFSLTGGEFNRESEVEFATGERLTITQTARGLDSDGYLL 118 (192)
T ss_dssp TEEEEEEES--CCCCGGGTT-THHHHHHHHHT-EE-TT---HHHHHTTEEEEEEEEEESSS--EEEEEEEEEE-TTS-EE
T ss_pred cEEEEEeecCChHHhhhhhHHHHhhhheeeeEEeccCCccCceeeeccEEEEEEEEEEeCCCEEEEEEEecccCCCCcEE
Confidence 33445555666677777776666666666544 334556677788889877654321 1
Q ss_pred -----CCCCcCCCCCCcceEEEEccEEEEEec--CCCeeeEEEEEEEEecCCceeEEEEEEeCcceEECC
Q 010998 296 -----PNGFLSTPTDAFSTEVHVNKFYMDYYD--SGEVKQFHSDLSLFDIGGKEVMRKTISVNDPLRYGG 358 (496)
Q Consensus 296 -----~g~~~~~~~~~~pf~i~l~~F~i~yy~--~G~p~~f~Sdlti~~~~G~~v~~~~I~VN~PL~y~G 358 (496)
+|. .-.++. ..+|++++|+-+|.. .|....+.+.--.++.+| +.......+||-..|++
T Consensus 119 ~d~~i~G~-vP~i~~--~a~v~i~dy~E~Y~~tgpg~l~s~Str~~~~~~~~-~~~~~~y~~~qtI~Y~~ 184 (192)
T PF07474_consen 119 LDTVISGQ-VPQIPA--GADVHIQDYTEEYVQTGPGQLTSSSTREFTVDGGG-SSRTISYRWNQTITYDE 184 (192)
T ss_dssp EEEEEEEE-E----T--T-EEE---EEEEEEEE-TTEEEEEEEEEEEEE-----EEEEEEEEEEEEE---
T ss_pred EEEEEecc-CCCCCC--CCeEEeCChhheeEEecCCcEEEEEEEEEEEcCCC-ceEEEEEEEEEEEEEcc
Confidence 122 112333 349999999999954 577777777766666444 55778889999888865
No 17
>PF12751 Vac7: Vacuolar segregation subunit 7; InterPro: IPR024260 Vac7 is localised at the vacuole membrane, a location which is consistent with its involvement in vacuole morphology and inheritance []. Vac7 has been shown to function as an upstream regulator of the Fab1 lipid kinase pathway []. The Fab1 lipid pathway is important for correct regulation of membrane trafficking events.
Probab=22.69 E-value=46 Score=35.46 Aligned_cols=35 Identities=20% Similarity=0.205 Sum_probs=30.2
Q ss_pred EEEcCcccchhhHHHHHHHHHHHHhhhcccccceE
Q 010998 243 YAFKGLVGRFAPIGVHLAMLLIMAGGTLSATGSFR 277 (496)
Q Consensus 243 ~A~Kg~~~r~G~~l~HlslvlILiG~llg~~~Gf~ 277 (496)
+-.|+.|.|++..+++.-|+++++|+++|.+++-.
T Consensus 293 ~r~r~~~~r~~~c~~~~i~~lL~ig~~~gFv~Att 327 (387)
T PF12751_consen 293 YRQRSWFSRFASCIYLSILLLLVIGFAIGFVFATT 327 (387)
T ss_pred hccccHHhhhhHHHHHHHHHHHHHHHHHHhhhhcC
Confidence 45688999999999999999999999999876654
No 18
>PF09879 DUF2106: Predicted membrane protein (DUF2106); InterPro: IPR011313 [NiFe] hydrogenases function in H2 metabolism in a variety of microorganisms, enabling them to use H2 as a source of reducing equivalent under aerobic and anaerobic conditions [NiFe] hydrogenases consist of two subunits, hydrogenase large and hydrogenase small. The large subunit contains the binuclear [NiFe] active site, while the small subunit binds at least one [4Fe-4S] cluster []. Energy-converting [NiFe] hydrogenases (or [NiFe]-hydrogenase-3-type) form a distinct group within the [NiFe] hydrogenase family [, ]. Members of this subgroup include: Hydrogenase 3 and 4 (Hyc and Hyf) from Escherichia coli CO-induced hydrogenase (Coo) from Rhodospirillum rubrum Mbh hydrogenase from Pyrococcus furiosus Eha and Ehb hydrogenases from Methanothermobacter species Ech hydrogenase from Methanosarcina barkeri Energy-converting [NiFe] hydrogenases are membrane-bound enzymes with a six-subunit core: the large and small hydrogenase subunits, plus two hydrophilic proteins and two integral membrane proteins. Their large and small subunits show little sequence similarity to other [NiFe] hydrogenases, except for key conserved residues coordinating the active site and [FeS] cluster. However, they show considerable sequence similarity to the six-subunit, energy-conserving NADH:quinone oxidoreductases (complex I), which are present in cytoplasmic membranes of many bacteria and in inner mitochondrial membranes. However, the reactions they catalyse differ significantly from complex I. Energy-converting [NiFe] hydrogenases function as ion pumps. Eha and Ehb hydrogenases contain extra subunits in addition to those shared by other energy-converting [NiFe] hydrogenases (or [NiFe]-hydrogenase-3-type). Eha contains a 6[4Fe-4S] polyferredoxin, a 10[4F-4S] polyferredoxin, ten other predicted integral membrane proteins (EhaA IPR011306 from INTERPRO, EhaB IPR011314 from INTERPRO, EhaC IPR011316 from INTERPRO, EhaD IPR011308 from INTERPRO, EhaE IPR011317 from INTERPRO, EhaF IPR011313 from INTERPRO, EhaG IPR011311 from INTERPRO, EhaI IPR011318 from INTERPRO, EhaK IPR011319 from INTERPRO, EhaL IPR011305 from INTERPRO) and four hydrophobic subunits (EhaM, EhaR IPR014502 from INTERPRO, EhS, EhT) []. The ten predicted integral membrane proteins are absent from Ech, Coo, Hyc and Hyf complexes, which may have simpler membrane components than Eha. Eha and Ehb catalyse the reduction of low-potential redox carriers (e.g. ferredoxins or polyferredoxins), which then might function as electron donors to oxidoreductases. Based on sequence similarity and genome context analysis, other organisms such as Methanopyrus kandleri, Methanocaldococcus jannaschii, and Methanothermobacter marburgensis also encode Eha-like [NiFe]-hydrogenase-3-type complexes and have very similar eha operon structure. This entry represents small membrane proteins that are predicted to be the EhaF transmembrane subunits of multi-subunit membrane-bound [NiFe]-hydrogenase Eha complexes.
Probab=22.52 E-value=99 Score=28.49 Aligned_cols=32 Identities=9% Similarity=0.078 Sum_probs=17.6
Q ss_pred HHHHHHHhcChhHHHHHH-HHHHHHhheeEEec
Q 010998 97 PRRVLAALSNLPLAIGEM-AAIAALMALGTAIE 128 (496)
Q Consensus 97 ~r~i~~~LsSmklaI~LL-~lLav~siiGTlip 128 (496)
+.++|++++.-+..--+. +++++..++|-++|
T Consensus 3 i~~i~n~ls~p~~v~rlfa~~l~~i~~~gl~~P 35 (153)
T PF09879_consen 3 IGKIWNYLSKPENVPRLFALFLCLILIIGLFVP 35 (153)
T ss_pred HHHHHHHhcCchhHHHHHHHHHHHHHHHHHhCC
Confidence 578999998876443332 22333444444444
No 19
>PF14221 DUF4330: Domain of unknown function (DUF4330)
Probab=21.07 E-value=6.7e+02 Score=23.52 Aligned_cols=33 Identities=18% Similarity=0.140 Sum_probs=14.9
Q ss_pred EcCc-ccchhhHHHHHHHHHHHHhhhcccccceEEE
Q 010998 245 FKGL-VGRFAPIGVHLAMLLIMAGGTLSATGSFRGS 279 (496)
Q Consensus 245 ~Kg~-~~r~G~~l~HlslvlILiG~llg~~~Gf~g~ 279 (496)
+||+ ++++-. +-+..+++++.++++.++...+.
T Consensus 6 ~kGrlFgkini--iDl~~~lvvl~v~~g~~~~~~~s 39 (168)
T PF14221_consen 6 SKGRLFGKINI--IDLLAILVVLAVVVGIFWKPGLS 39 (168)
T ss_pred cCCcEeeeEeH--HHHHHHHHHHHHhheeEEEeccc
Confidence 3444 344433 33444444444455555544443
No 20
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=20.65 E-value=35 Score=36.13 Aligned_cols=24 Identities=8% Similarity=0.207 Sum_probs=15.6
Q ss_pred CcccccHHHHHHHHHHHHHhhhhh
Q 010998 161 DHMFSSPIFLGLLVMMGLSLMACT 184 (496)
Q Consensus 161 ~~vYsSwWF~~Ll~LL~inL~~Ct 184 (496)
..|=+|.|+..+++++++-++.+.
T Consensus 35 ~~ie~sl~~~~~~~~~~~~~~~~~ 58 (398)
T PRK10747 35 YNIETSVTGLAIILILAMVVLFAI 58 (398)
T ss_pred EEEEehHHHHHHHHHHHHHHHHHH
Confidence 457788888777666655554443
Done!