Query 013763
Match_columns 437
No_of_seqs 217 out of 1195
Neff 4.9
Searched_HMMs 46136
Date Fri Mar 29 07:09:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013763.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/013763hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF06999 Suc_Fer-like: Sucrase 100.0 1.2E-45 2.6E-50 351.6 19.7 209 73-287 1-230 (230)
2 COG4759 Uncharacterized protei 100.0 3.1E-32 6.7E-37 267.4 13.3 229 62-305 3-242 (316)
3 cd03062 TRX_Fd_Sucrase TRX-lik 99.9 7.8E-26 1.7E-30 191.4 9.4 96 186-287 2-97 (97)
4 cd02980 TRX_Fd_family Thioredo 99.5 2E-14 4.3E-19 114.7 7.7 76 186-272 1-77 (77)
5 cd03063 TRX_Fd_FDH_beta TRX-li 99.5 5.3E-14 1.1E-18 118.9 7.8 77 187-276 2-81 (92)
6 COG3411 Ferredoxin [Energy pro 99.3 8.6E-13 1.9E-17 104.1 3.9 58 223-287 2-59 (64)
7 cd03064 TRX_Fd_NuoE TRX-like [ 99.3 9.3E-12 2E-16 101.1 6.3 74 185-271 1-79 (80)
8 cd03083 TRX_Fd_NuoE_hoxF TRX-l 99.0 3.7E-10 8.1E-15 92.4 5.8 73 186-271 2-79 (80)
9 cd03081 TRX_Fd_NuoE_FDH_gamma 99.0 6.8E-10 1.5E-14 90.9 6.1 73 186-271 2-79 (80)
10 PF01257 2Fe-2S_thioredx: Thio 98.9 1.3E-09 2.7E-14 98.7 6.5 78 181-271 61-143 (145)
11 PRK07539 NADH dehydrogenase su 98.9 1.5E-09 3.3E-14 99.2 6.8 78 181-271 70-152 (154)
12 TIGR01958 nuoE_fam NADH-quinon 98.8 7.1E-09 1.5E-13 94.1 6.9 78 181-271 64-146 (148)
13 cd03082 TRX_Fd_NuoE_W_FDH_beta 98.5 1.9E-07 4.1E-12 75.5 4.8 68 186-270 2-70 (72)
14 PRK05988 formate dehydrogenase 98.3 1.7E-06 3.7E-11 79.7 7.2 78 181-271 71-153 (156)
15 PRK07571 bidirectional hydroge 98.3 1.8E-06 3.9E-11 80.6 6.5 79 181-272 84-167 (169)
16 PRK12373 NADH dehydrogenase su 98.2 3.8E-06 8.2E-11 87.6 7.3 86 181-280 85-176 (400)
17 COG1905 NuoE NADH:ubiquinone o 98.0 8.2E-06 1.8E-10 75.7 6.0 79 181-272 73-156 (160)
18 PF07845 DUF1636: Protein of u 97.4 0.00072 1.6E-08 59.8 8.0 80 188-271 1-85 (116)
19 KOG3196 NADH:ubiquinone oxidor 97.4 0.00021 4.6E-09 68.3 4.8 89 181-283 109-202 (233)
20 cd03062 TRX_Fd_Sucrase TRX-lik 94.1 0.2 4.3E-06 42.6 7.0 83 83-172 2-86 (97)
21 COG5469 Predicted metal-bindin 94.1 0.27 5.8E-06 45.0 8.0 85 183-271 15-105 (143)
22 PF10399 UCR_Fe-S_N: Ubiquitin 79.2 1.8 4E-05 31.8 2.5 29 409-437 10-39 (41)
23 COG3411 Ferredoxin [Energy pro 77.9 1.9 4.2E-05 34.7 2.4 31 143-173 19-49 (64)
24 PF06999 Suc_Fer-like: Sucrase 61.5 20 0.00043 34.4 6.0 28 140-167 183-214 (230)
25 cd02980 TRX_Fd_family Thioredo 51.4 69 0.0015 24.9 6.6 24 143-166 52-75 (77)
26 PF07293 DUF1450: Protein of u 42.6 85 0.0018 26.2 6.0 68 186-274 3-73 (78)
27 PF05961 Chordopox_A13L: Chord 42.4 24 0.00051 28.9 2.6 22 415-436 5-26 (68)
28 cd05565 PTS_IIB_lactose PTS_II 34.3 85 0.0019 27.0 5.0 27 201-229 10-36 (99)
29 TIGR00853 pts-lac PTS system, 30.7 87 0.0019 26.5 4.4 43 202-246 14-58 (95)
30 PF12669 P12: Virus attachment 30.2 40 0.00086 26.4 2.1 10 427-436 14-24 (58)
31 PRK10310 PTS system galactitol 27.4 92 0.002 26.2 4.0 51 187-246 5-58 (94)
32 PHA03049 IMV membrane protein; 27.3 59 0.0013 26.6 2.6 22 415-436 5-26 (68)
33 cd03416 CbiX_SirB_N Sirohydroc 27.1 2.6E+02 0.0057 22.9 6.7 73 188-271 2-84 (101)
34 cd05564 PTS_IIB_chitobiose_lic 26.7 1.1E+02 0.0024 25.8 4.3 28 201-230 9-36 (96)
35 COG1062 AdhC Zn-dependent alco 26.1 1.9E+02 0.0041 30.8 6.6 87 186-292 256-347 (366)
36 COG3414 SgaB Phosphotransferas 24.3 2.6E+02 0.0056 23.9 6.1 50 187-243 4-54 (93)
37 cd05566 PTS_IIB_galactitol PTS 23.8 2.2E+02 0.0047 22.9 5.4 29 187-221 3-31 (89)
38 PRK09590 celB cellobiose phosp 22.1 1.7E+02 0.0036 25.4 4.6 26 202-229 12-37 (104)
39 PRK13669 hypothetical protein; 20.4 2.9E+02 0.0063 23.2 5.5 46 186-244 3-51 (78)
No 1
>PF06999 Suc_Fer-like: Sucrase/ferredoxin-like; InterPro: IPR009737 This family contains a number of bacterial and eukaryotic proteins approximately 400 residues long that resemble ferredoxin and appear to have sucrolytic activity [].
Probab=100.00 E-value=1.2e-45 Score=351.64 Aligned_cols=209 Identities=39% Similarity=0.684 Sum_probs=175.1
Q ss_pred CCCccccccceEEEEEecCCCCCchhhhhhcCCChhHHHHHHHhccCCCCCcceeeeeccCCCCC-------CCCCceEE
Q 013763 73 QLAGTVDFYERHVFVCYKNPSVWPPRIEAAEFDRLPRLLSAAVGARKPDMKRETRLTICEGHDGT-------ETSNGDVL 145 (437)
Q Consensus 73 pL~GTa~~y~rHl~L~~e~p~~Wps~iE~~~~~~Lp~~L~aaIk~~k~~l~~~~~L~I~~g~~g~-------~~s~~~VL 145 (437)
||+|||+.|.+||+|++ ++.+||++++++. +.+++.|.+++++.....+.+..++++++.... ....++||
T Consensus 1 pL~Gta~~~~~hvli~~-~~~~W~~~~~~~~-~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~ 78 (230)
T PF06999_consen 1 PLIGTAPPYDRHVLIET-GPGDWPSDALDSK-SSLPQALSAALKARKKKLGVRFLLIRRPGRISNSSLPEPSRPKPGDVL 78 (230)
T ss_pred CcCcccCcCcEEEEEEc-CCCCCCcchhcCC-cchHHHHHHHHHHhhcccCccccceecCCcccccccccccCCCCceEE
Confidence 79999999999999988 7899999988643 478999999998887777666677777665422 34556899
Q ss_pred EecCcEEEccCCCCCHHHHHHHHhhcCCC--------------CCCCCCCCCCccEEEEccCCCCCCCcccCcHHHHHHH
Q 013763 146 IFPDMIRYRRLTHFDVDTFVEEVLVKNSE--------------WLPGTPEKLKGWYVFVCSHASRDRRCGVCGPPLVSRF 211 (437)
Q Consensus 146 IfPd~~~~~~l~~~dv~~fv~~~L~~d~~--------------~~p~~pe~l~~~~ILVCtHg~RD~rCGi~G~~L~~aL 211 (437)
|||+|++++.++.....+|+..++..+.. ..+...+.+..++||||||++||+|||++|++|+++|
T Consensus 79 v~p~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iLVCtHg~RD~rCg~~Gp~l~~~l 158 (230)
T PF06999_consen 79 VFPDFKIYRFVTRSNVQEFVEDLLDLDLPAVTALPRQSSAAPDKLPFPREPPDKPLILVCTHGKRDKRCGILGPPLAREL 158 (230)
T ss_pred EEcccEEeccccchhhHHHHHHhccccccccccccCccccccccCCCCcccCCCCEEEEcCCCCcCCchhcccHHHHHHH
Confidence 99999999988788888888877766543 1112234567899999999999999999999999999
Q ss_pred HHHHHHcCCCCcEEEEeecCCCCcccCccEEEEcCCCCCCcccEEEeccCCCCHHHHHHHHHhCCeeccceecccC
Q 013763 212 KEEIETHGLLGKVSVSPCSHIGGHKYAGNVIIFGSNVNGEVTGHWYGYVAPDDVPTLLEQHIGKGEIVDWLWRGQM 287 (437)
Q Consensus 212 ~eel~~~GL~~~V~V~~tSHlGGHcfAGnVIv~~P~~~g~~~GvwYGrVtPedV~~IVeehL~~G~iv~~l~RG~~ 287 (437)
++++.+++|..++ ||+|||+|||+||||||+|. ..+++|+|||||+|++|+.||++++.+|+++.++|||+|
T Consensus 159 ~~~~~~~~l~~~~-V~~iSHiGGHkfAgNvIiy~---~~~p~g~wyGrv~p~~v~~iv~~t~~~g~vi~~~~RG~~ 230 (230)
T PF06999_consen 159 EKELRERGLSRDR-VWEISHIGGHKFAGNVIIYS---KPKPDGIWYGRVTPEDVEGIVDATILDGKVIPELYRGRM 230 (230)
T ss_pred HHHhhhcCCccce-EEEecccccceecCeEEEEe---cCCCcEEEEEeeCHHHHHHHHHHHHhCCcCcCccCcCCC
Confidence 9999999997544 99999999999999999992 011289999999999999999998999999999999997
No 2
>COG4759 Uncharacterized protein conserved in bacteria containing thioredoxin-like domain [Posttranslational modification, protein turnover, chaperones]
Probab=99.98 E-value=3.1e-32 Score=267.37 Aligned_cols=229 Identities=20% Similarity=0.337 Sum_probs=174.2
Q ss_pred cCccCCccC--CCCCCccccccceEEEEEecCCCCCchhhhhhcCCChhHHHHHHHhccCCCCCcceeeeeccCCCCCCC
Q 013763 62 FGFSRPEFR--LCQLAGTVDFYERHVFVCYKNPSVWPPRIEAAEFDRLPRLLSAAVGARKPDMKRETRLTICEGHDGTET 139 (437)
Q Consensus 62 ~gF~r~e~~--~EpL~GTa~~y~rHl~L~~e~p~~Wps~iE~~~~~~Lp~~L~aaIk~~k~~l~~~~~L~I~~g~~g~~~ 139 (437)
|=||..+.+ .|+++|||..++.+|+| |.|.||+.++.++ +.+|..|...++.....-. -.+|.|.+.+....+
T Consensus 3 ~~fCS~vS~~~~EDpIGTa~~~~~ylli--E~pqPW~~~~~~s--~~ip~~l~dl~~~~~~~~~-~~~l~i~~d~ey~~~ 77 (316)
T COG4759 3 CRFCSDVSKANGEDPIGTANTRDGYLLI--EAPQPWTENVLDS--KPIPQNLQDLLEELYKAGG-VIPLAIAPDREYSQP 77 (316)
T ss_pred cchhhhhhhhcCCCCCCcccccceEEEE--eCCCCcccccccC--CCCChhHHHHHHHHHhcCC-ceeEEEeeccccCCC
Confidence 568888876 89999999999996655 6699999999875 7899999888887644322 245666666654444
Q ss_pred CCceEEEe-cCcEEEccC-------CCCCHHHHHHHHhhcCCCCCCCCC-CCCCccEEEEccCCCCCCCcccCcHHHHHH
Q 013763 140 SNGDVLIF-PDMIRYRRL-------THFDVDTFVEEVLVKNSEWLPGTP-EKLKGWYVFVCSHASRDRRCGVCGPPLVSR 210 (437)
Q Consensus 140 s~~~VLIf-Pd~~~~~~l-------~~~dv~~fv~~~L~~d~~~~p~~p-e~l~~~~ILVCtHg~RD~rCGi~G~~L~~a 210 (437)
.-.++++| +-++.+..+ ++.....+..+++..+.+ ++... .....+.|||||||++|+||++.|.|+|+.
T Consensus 78 g~tr~~~y~~~~~~fa~y~K~E~lv~d~~~~~l~l~l~~~~~~-l~~~~~~~~h~RdiLVCTHgn~D~cCarfG~P~Y~~ 156 (316)
T COG4759 78 GYTRVLIYRRPAKLFAGYSKQEFLVPDAELGVLILALLLQGKE-LAQFDIYPQHTRDILVCTHGNVDVCCARFGYPFYQQ 156 (316)
T ss_pred CceEEEEEecHHHhhhhheeeEEecccchhhhhHHHHhcCCcc-chhhccchhhhceEEEecCCChhhhhhhcCcHHHHH
Confidence 44478776 223233222 222333333333332221 11111 111456899999999999999999999999
Q ss_pred HHHHHHHcCCCCcEEEEeecCCCCcccCccEEEEcCCCCCCcccEEEeccCCCCHHHHHHHHHhCCeeccceecccCCCC
Q 013763 211 FKEEIETHGLLGKVSVSPCSHIGGHKYAGNVIIFGSNVNGEVTGHWYGYVAPDDVPTLLEQHIGKGEIVDWLWRGQMGLS 290 (437)
Q Consensus 211 L~eel~~~GL~~~V~V~~tSHlGGHcfAGnVIv~~P~~~g~~~GvwYGrVtPedV~~IVeehL~~G~iv~~l~RG~~gls 290 (437)
++..+...++. .++||+|||+|||+||+++|.+| +|.+||+++++....||..+ .+-+-+.+.+|||.+|+
T Consensus 157 ~r~~~a~l~~~-~lRvWq~SHfgGHrFAPTlidlP-------~GqyyG~Ld~~~~~~l~~r~-gdvk~L~~~YRGWg~L~ 227 (316)
T COG4759 157 LRAQYADLNLE-NLRVWQSSHFGGHRFAPTLIDLP-------QGQYYGHLDPESLDSLLTRT-GDVKQLKPFYRGWGGLP 227 (316)
T ss_pred HHHhhhhcccc-ceEEEEecccCccccCchhhcCC-------CCceeeecCHHHHHHHHhcc-CchhhhhhhccCCcCCC
Confidence 99999998885 79999999999999999999997 79999999999999999865 56667999999999999
Q ss_pred HHHHHHHHHHHHHhc
Q 013763 291 SEEQKKFLELRLQLN 305 (437)
Q Consensus 291 ~~~Q~ae~~lr~~l~ 305 (437)
+++|++|++++++-+
T Consensus 228 ~~~QI~Erei~~~~G 242 (316)
T COG4759 228 KFEQIAEREIWMQHG 242 (316)
T ss_pred HHHHHHHHHHHHHhc
Confidence 999999999999855
No 3
>cd03062 TRX_Fd_Sucrase TRX-like [2Fe-2S] Ferredoxin (Fd) family, Sucrase subfamily; composed of proteins with similarity to a novel plant enzyme, isolated from potato, which contains a Fd-like domain and exhibits sucrolytic activity. The putative active site of the Fd-like domain of the enzyme contains two cysteines and two histidines for possible binding to iron-sulfur clusters, compared to four cysteines present in the active site of Fd.
Probab=99.93 E-value=7.8e-26 Score=191.43 Aligned_cols=96 Identities=48% Similarity=0.972 Sum_probs=89.4
Q ss_pred cEEEEccCCCCCCCcccCcHHHHHHHHHHHHHcCCCCcEEEEeecCCCCcccCccEEEEcCCCCCCcccEEEeccCCCCH
Q 013763 186 WYVFVCSHASRDRRCGVCGPPLVSRFKEEIETHGLLGKVSVSPCSHIGGHKYAGNVIIFGSNVNGEVTGHWYGYVAPDDV 265 (437)
Q Consensus 186 ~~ILVCtHg~RD~rCGi~G~~L~~aL~eel~~~GL~~~V~V~~tSHlGGHcfAGnVIv~~P~~~g~~~GvwYGrVtPedV 265 (437)
+|||||+|++||.||+..|++|+++|++++.++|. ++|.|++|||+|||+|+||||+||+ .+|+|||+|+|+++
T Consensus 2 ~~ilVCth~rrd~~C~~~g~~l~~~l~~~l~~~~~-~~v~v~~~~clG~c~~gp~vvvyP~-----~~g~wy~~v~p~~v 75 (97)
T cd03062 2 PLVLVCTHGKRDKRCGICGPPLAAELRAELPEHGP-GGVRVWEVSHVGGHKFAGNVIIYPK-----GDGIWYGRVTPEHV 75 (97)
T ss_pred CEEEEeCCCCCCcChhhcCHHHHHHHHHHHHHhCC-CceEEEeCCcCCccCcCCEEEEEeC-----CCeeEEeecCHHHH
Confidence 79999999999999999999999999999999985 5799999999999999999999874 26999999999999
Q ss_pred HHHHHHHHhCCeeccceecccC
Q 013763 266 PTLLEQHIGKGEIVDWLWRGQM 287 (437)
Q Consensus 266 ~~IVeehL~~G~iv~~l~RG~~ 287 (437)
++||++|+.+|+++++++|+.+
T Consensus 76 ~~Iv~~hl~~g~~v~~~~~~~~ 97 (97)
T cd03062 76 PPIVDRLILGGKIIPELRRGGI 97 (97)
T ss_pred HHHHHHHhcCCcCCcccccCCC
Confidence 9999999999999999998764
No 4
>cd02980 TRX_Fd_family Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:ubiquinone oxidoreductase (NuoE). TRX-like Fds are soluble low-potential electron carriers containing a single [2Fe-2S] cluster. The exact role of TRX-like Fd is still unclear. It has been suggested that it may be involved in nitrogen fixation. Its homologous domains in large redox enzymes (such as Nuo and hydrogenases) function as electron carriers.
Probab=99.53 E-value=2e-14 Score=114.66 Aligned_cols=76 Identities=29% Similarity=0.609 Sum_probs=66.0
Q ss_pred cEEEEccCCCCCCCcccCc-HHHHHHHHHHHHHcCCCCcEEEEeecCCCCcccCccEEEEcCCCCCCcccEEEeccCCCC
Q 013763 186 WYVFVCSHASRDRRCGVCG-PPLVSRFKEEIETHGLLGKVSVSPCSHIGGHKYAGNVIIFGSNVNGEVTGHWYGYVAPDD 264 (437)
Q Consensus 186 ~~ILVCtHg~RD~rCGi~G-~~L~~aL~eel~~~GL~~~V~V~~tSHlGGHcfAGnVIv~~P~~~g~~~GvwYGrVtPed 264 (437)
.+|+||+|. +|...| ..|+++|++++..+++++.|.|.+++|+|+ |..||+|.+.| +++||++|+|++
T Consensus 1 ~~I~VC~~~----~C~~~G~~~l~~~l~~~~~~~~~~~~v~v~~~~Clg~-C~~~P~v~i~~------~~~~y~~v~~~~ 69 (77)
T cd02980 1 HHILVCTGT----ACGLRGAEELLEALEKELGIRGGDGRVTVERVGCLGA-CGLAPVVVVYP------DGVWYGRVTPED 69 (77)
T ss_pred CEEEEccCC----CcccCCHHHHHHHHHHHHhhhcCCCeEEEEEcCCcCc-ccCCCEEEEeC------CCeEEccCCHHH
Confidence 479999997 899996 799999999999999988899999999955 55556666655 689999999999
Q ss_pred HHHHHHHH
Q 013763 265 VPTLLEQH 272 (437)
Q Consensus 265 V~~IVeeh 272 (437)
+++||++|
T Consensus 70 ~~~il~~~ 77 (77)
T cd02980 70 VEEIVEEL 77 (77)
T ss_pred HHHHHHhC
Confidence 99999875
No 5
>cd03063 TRX_Fd_FDH_beta TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of formate to carbon dioxide accompanied by the reduction of NAD to NADH. FDH is a heteromeric enzyme composed of four nonidentical subunits (alpha, beta, gamma and delta). The FDH beta subunit contains a NADH:ubiquinone oxidoreductase (Nuo) F domain C-terminal to a Fd-like domain without the active site cysteines. The absence of conserved metal-binding residues in the putative active site suggests that members of this subfamily have lost the ability to bind iron-sulfur clusters in the N-terminal Fd-like domain. The C-terminal NuoF domain is a component of Nuo, a multisubunit complex catalyzing the electron transfer of NADH to quinone coupled with the transfer of protons across the membrane. NuoF contains one [4Fe-4S] c
Probab=99.50 E-value=5.3e-14 Score=118.91 Aligned_cols=77 Identities=22% Similarity=0.330 Sum_probs=69.4
Q ss_pred EEEEccCCCCCCCcccCc-HHHHHHHHHHHHHcCCCCcEEEEeecCCCCcccCccEEEEc-CCCCCCccc-EEEeccCCC
Q 013763 187 YVFVCSHASRDRRCGVCG-PPLVSRFKEEIETHGLLGKVSVSPCSHIGGHKYAGNVIIFG-SNVNGEVTG-HWYGYVAPD 263 (437)
Q Consensus 187 ~ILVCtHg~RD~rCGi~G-~~L~~aL~eel~~~GL~~~V~V~~tSHlGGHcfAGnVIv~~-P~~~g~~~G-vwYGrVtPe 263 (437)
+|+||+.+ +|-..| ..++++|+++++++|| ++.|.+|||+ |+|+.||+|.+. | +| +.|++|+|+
T Consensus 2 ~I~Vc~gT----~ciAaGA~~V~~al~~ei~~~gl--~v~v~~tGC~-G~C~~ePlV~V~~p------~g~v~Y~~V~~e 68 (92)
T cd03063 2 RIYVPRDA----AALALGADEVAEAIEAEAAARGL--AATIVRNGSR-GMYWLEPLVEVETP------GGRVAYGPVTPA 68 (92)
T ss_pred EEEEeCCh----hhhhhCHHHHHHHHHHHHHHcCC--eEEEEEecCc-eecCCCCEEEEEeC------CCcEEEEeCCHH
Confidence 59999987 666667 6999999999999999 6999999999 899999999885 6 56 999999999
Q ss_pred CHHHHHHHHHhCC
Q 013763 264 DVPTLLEQHIGKG 276 (437)
Q Consensus 264 dV~~IVeehL~~G 276 (437)
||++||++|+.+.
T Consensus 69 dv~~Iv~~~~~~~ 81 (92)
T cd03063 69 DVASLLDAGALEG 81 (92)
T ss_pred HHHHHHHHHhhcC
Confidence 9999999998754
No 6
>COG3411 Ferredoxin [Energy production and conversion]
Probab=99.33 E-value=8.6e-13 Score=104.13 Aligned_cols=58 Identities=24% Similarity=0.414 Sum_probs=53.7
Q ss_pred cEEEEeecCCCCcccCccEEEEcCCCCCCcccEEEeccCCCCHHHHHHHHHhCCeeccceecccC
Q 013763 223 KVSVSPCSHIGGHKYAGNVIIFGSNVNGEVTGHWYGYVAPDDVPTLLEQHIGKGEIVDWLWRGQM 287 (437)
Q Consensus 223 ~V~V~~tSHlGGHcfAGnVIv~~P~~~g~~~GvwYGrVtPedV~~IVeehL~~G~iv~~l~RG~~ 287 (437)
.|++.+++|+ |-|..||+++++| +|+||++|+|+++++||++||.+|++|+++..++.
T Consensus 2 ~i~~t~tgCl-~~C~~gPvl~vYp------egvWY~~V~p~~a~rIv~~hl~~Gr~Ve~~~~~~~ 59 (64)
T COG3411 2 SIRVTRTGCL-GVCQDGPVLVVYP------EGVWYTRVDPEDARRIVQSHLLGGRPVEELIYHTG 59 (64)
T ss_pred ceEEeecchh-hhhccCCEEEEec------CCeeEeccCHHHHHHHHHHHHhCCCcchhhcccCC
Confidence 4899999999 7888999999888 89999999999999999999999999999988765
No 7
>cd03064 TRX_Fd_NuoE TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes. It is a multisubunit complex with at least 14 core subunits. It catalyzes the electron transfer of NADH to quinone coupled with the transfer of protons across the membrane, providing the proton motive force required for energy-consuming processes. Electrons are transferred from NADH to quinone through a chain of iron-sulfur clusters in Nuo, including the [2Fe-2S] cluster present in NuoE core subunit, also called the 24 kD subunit of Complex 1. This subfamily also include formate dehydrogenases, NiFe hydrogenases and NAD-reducing hydrogenases, that contain a NuoE domain. A subset of these proteins contain both NuoE and NuoF in a single chain. NuoF, also called the 51 kD subunit of Complex 1, contains one [4Fe-4S] clu
Probab=99.26 E-value=9.3e-12 Score=101.08 Aligned_cols=74 Identities=19% Similarity=0.410 Sum_probs=64.9
Q ss_pred ccEEEEccCCCCCCCcccCc-HHHHHHHHHHHHHcCC----CCcEEEEeecCCCCcccCccEEEEcCCCCCCcccEEEec
Q 013763 185 GWYVFVCSHASRDRRCGVCG-PPLVSRFKEEIETHGL----LGKVSVSPCSHIGGHKYAGNVIIFGSNVNGEVTGHWYGY 259 (437)
Q Consensus 185 ~~~ILVCtHg~RD~rCGi~G-~~L~~aL~eel~~~GL----~~~V~V~~tSHlGGHcfAGnVIv~~P~~~g~~~GvwYGr 259 (437)
+.+|+||++. +|...| ..|+++|++++..+++ ++.|.|..++|+ |+|..||++++. |.||++
T Consensus 1 ~~~v~vC~~~----~C~~~Ga~~~~~~l~~~l~~~~~~~~~~~~v~v~~t~Cl-G~C~~gP~v~v~--------g~~y~~ 67 (80)
T cd03064 1 KHVIRVCTGT----ACHLRGAEALLEALEKKLGIKPGETTPDGRFTLEEVECL-GACDLAPVMMIN--------DDVYGR 67 (80)
T ss_pred CEEEEECCCc----HHHhCCHHHHHHHHHHHhCCCCCCcCCCCEEEEEEecCc-CcCCCCCEEEEC--------CEEECC
Confidence 3689999997 799998 6999999999976643 557999999999 899999999983 799999
Q ss_pred cCCCCHHHHHHH
Q 013763 260 VAPDDVPTLLEQ 271 (437)
Q Consensus 260 VtPedV~~IVee 271 (437)
|+|+++++||++
T Consensus 68 vt~~~i~~i~~~ 79 (80)
T cd03064 68 LTPEKVDAILEA 79 (80)
T ss_pred CCHHHHHHHHHh
Confidence 999999999974
No 8
>cd03083 TRX_Fd_NuoE_hoxF TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, hoxF; composed of proteins similar to the NAD-reducing hydrogenase (hoxS) alpha subunit of Alcaligenes eutrophus H16. HoxS is a cytoplasmic hydrogenase catalyzing the oxidation of molecular hydrogen accompanied by the reduction of NAD. It is composed of four structural subunits encoded by the genes hoxF, hoxU, hoxY and hoxH. The hoxF protein (or alpha subunit) is a fusion protein containing an N-terminal NuoE-like domain and a C-terminal NuoF domain. NuoE and NuoF are components of Nuo, a multisubunit complex catalyzing the electron transfer of NADH to quinone coupled with the transfer of protons across the membrane. Electrons are transferred from NADH to quinone through a chain of iron-sulfur clusters in Nuo, including the [2Fe-2S] cluster in NuoE and the [4Fe-4S] cluster in NuoF. In addition, NuoF is also the NADH- and FMN-binding subunit. HoxF may be involved
Probab=99.03 E-value=3.7e-10 Score=92.42 Aligned_cols=73 Identities=12% Similarity=0.216 Sum_probs=63.8
Q ss_pred cEEEEccCCCCCCCcccCc-HHHHHHHHHHHHHcC--C--CCcEEEEeecCCCCcccCccEEEEcCCCCCCcccEEEecc
Q 013763 186 WYVFVCSHASRDRRCGVCG-PPLVSRFKEEIETHG--L--LGKVSVSPCSHIGGHKYAGNVIIFGSNVNGEVTGHWYGYV 260 (437)
Q Consensus 186 ~~ILVCtHg~RD~rCGi~G-~~L~~aL~eel~~~G--L--~~~V~V~~tSHlGGHcfAGnVIv~~P~~~g~~~GvwYGrV 260 (437)
.+|.||... .|...| ..|+++|+++|..++ + ++.+.+..++|+ |.|..||+|.+. +.||++|
T Consensus 2 ~~i~vC~~~----~C~~~Ga~~v~~~l~~~l~~~~~~~t~d~~v~l~~~gCl-G~C~~~P~v~V~--------~~~y~~v 68 (80)
T cd03083 2 YRIYLSDSI----TDRMNGYKAVLDALCRELGIRFGEVDEDGMVGLFFTSCT-GLCDQGPALLIN--------NRVFTRL 68 (80)
T ss_pred EEEEEcCCh----HHHhCCHHHHHHHHHHHHCCCCCCcCCCCeEEEEEecee-cCcCCCCeEEEC--------CEEECCC
Confidence 579999987 799998 799999999997554 4 456899999999 899999999983 6899999
Q ss_pred CCCCHHHHHHH
Q 013763 261 APDDVPTLLEQ 271 (437)
Q Consensus 261 tPedV~~IVee 271 (437)
+|+++++||+.
T Consensus 69 ~~~~v~~iv~~ 79 (80)
T cd03083 69 TPGRIDQIAEL 79 (80)
T ss_pred CHHHHHHHHhc
Confidence 99999999974
No 9
>cd03081 TRX_Fd_NuoE_FDH_gamma TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of formate to carbon dioxide accompanied by the reduction of NAD+ to NADH. FDH is a heteromeric enzyme composed of four nonidentical subunits (alpha, beta, gamma and delta). The FDH gamma subunit is closely related to NuoE, which is part of a multisubunit complex (Nuo) catalyzing the electron transfer of NADH to quinone coupled with the transfer of protons across the membrane. Electrons are transferred from NADH to quinone through a chain of iron-sulfur clusters in Nuo, including the [2Fe-2S] cluster present in NuoE. Similarly, the FDH gamma subunit is hypothesized to be involved in an electron transport chain involving other FDH subunits, upon the oxidat
Probab=98.99 E-value=6.8e-10 Score=90.88 Aligned_cols=73 Identities=21% Similarity=0.385 Sum_probs=63.8
Q ss_pred cEEEEccCCCCCCCcccCc-HHHHHHHHHHHH----HcCCCCcEEEEeecCCCCcccCccEEEEcCCCCCCcccEEEecc
Q 013763 186 WYVFVCSHASRDRRCGVCG-PPLVSRFKEEIE----THGLLGKVSVSPCSHIGGHKYAGNVIIFGSNVNGEVTGHWYGYV 260 (437)
Q Consensus 186 ~~ILVCtHg~RD~rCGi~G-~~L~~aL~eel~----~~GL~~~V~V~~tSHlGGHcfAGnVIv~~P~~~g~~~GvwYGrV 260 (437)
.+|.||+.. .|...| ..|+++|+++|. +...++.+.|..++|+ |.|..||++++ ++.||++|
T Consensus 2 ~~i~vC~~~----~C~~~G~~~ll~~l~~~l~~~~g~~~~dg~~~l~~~~Cl-G~C~~gP~~~v--------~~~~~~~~ 68 (80)
T cd03081 2 HVLKLCRAE----ACQAMGAEALAAHIKARLGIDFHETTADGSVTLEPVYCL-GLCACSPAAMI--------DGEVHGRV 68 (80)
T ss_pred eEEEEcCCh----HHHhCCHHHHHHHHHHHhCCCCCCcCCCCeEEEEEeeec-CccCCCCEEEE--------CCEEECCC
Confidence 579999997 899998 699999999986 2344567999999999 89999999998 57899999
Q ss_pred CCCCHHHHHHH
Q 013763 261 APDDVPTLLEQ 271 (437)
Q Consensus 261 tPedV~~IVee 271 (437)
+|++|++||++
T Consensus 69 ~~e~i~~il~~ 79 (80)
T cd03081 69 DPEKFDALLAE 79 (80)
T ss_pred CHHHHHHHHHc
Confidence 99999999974
No 10
>PF01257 2Fe-2S_thioredx: Thioredoxin-like [2Fe-2S] ferredoxin; InterPro: IPR002023 NADH:ubiquinone oxidoreductase (complex I) (1.6.5.3 from EC) is a respiratory-chain enzyme that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane (NADH + ubiquinone = NAD+ + ubiquinol) []. Complex I is a major source of reactive oxygen species (ROS) that are predominantly formed by electron transfer from FMNH(2). Complex I is found in bacteria, cyanobacteria (as a NADH-plastoquinone oxidoreductase), archaea [], mitochondira, and in the hydrogenosome, a mitochondria-derived organelle. In general, the bacterial complex consists of 14 different subunits, while the mitochondrial complex contains homologues to these subunits in addition to approximately 31 additional proteins []. Mitochondrial complex I, which is located in the inner mitochondrial membrane, is the largest multimeric respiratory enzyme in the mitochondria, consisting of more than 40 subunits, one FMN co-factor and eight FeS clusters []. The assembly of mitochondrial complex I is an intricate process that requires the cooperation of the nuclear and mitochondrial genomes [, ]. Mitochondrial complex I can cycle between active and deactive forms that can be distinguished by the reactivity towards divalent cations and thiol-reactive agents. All redox prosthetic groups reside in the peripheral arm of the L-shaped structure. The NADH oxidation domain harbouring the FMN cofactor is connected via a chain of iron-sulphur clusters to the ubiquinone reduction site that is located in a large pocket formed by the PSST and 49kDa subunits of complex I []. Among the many polypeptide subunits that make up complex I, there is one with a molecular weight of 24 kDa (in mammals), which is a component of the iron-sulphur (IP) fragment of the enzyme. It seems to bind a 2Fe-2S iron-sulphur cluster. The 24 kDa subunit is nuclear encoded, as a precursor form with a transit peptide in mammals and in Neurospora crassa. There is a highly conserved region located in the central section of this subunit that contains two conserved cysteines, that are probably involved in the binding of the 2Fe-2S centre. The 24 kDa subunit is highly similar to [, ]: Subunit E of Escherichia coli NADH-ubiquinone oxidoreductase (gene nuoE) Subunit NQO2 of Paracoccus denitrificans NADH-ubiquinone oxidoreductase ; GO: 0016491 oxidoreductase activity, 0051287 NAD binding, 0055114 oxidation-reduction process; PDB: 1M2D_A 1M2A_B 1F37_B 1M2B_B 2FUG_B 3M9S_B 3IAM_B 3IAS_K 2YBB_2 3I9V_B ....
Probab=98.95 E-value=1.3e-09 Score=98.71 Aligned_cols=78 Identities=27% Similarity=0.524 Sum_probs=65.6
Q ss_pred CCCCccEEEEccCCCCCCCcccCc-HHHHHHHHHHHH----HcCCCCcEEEEeecCCCCcccCccEEEEcCCCCCCcccE
Q 013763 181 EKLKGWYVFVCSHASRDRRCGVCG-PPLVSRFKEEIE----THGLLGKVSVSPCSHIGGHKYAGNVIIFGSNVNGEVTGH 255 (437)
Q Consensus 181 e~l~~~~ILVCtHg~RD~rCGi~G-~~L~~aL~eel~----~~GL~~~V~V~~tSHlGGHcfAGnVIv~~P~~~g~~~Gv 255 (437)
++..+.+|+||++. .|...| ..|+++|+++|. +...++.+.|..++|+ |+|..||+|.+ +|.
T Consensus 61 ~p~gk~~I~VC~g~----~C~~~Ga~~l~~~l~~~l~i~~g~~~~dg~~~l~~~~Cl-G~C~~aP~v~V--------~~~ 127 (145)
T PF01257_consen 61 EPKGKHHIRVCTGT----SCHLRGAEELLEALEEELGIKPGETTEDGKFTLEETGCL-GACDQAPVVMV--------DGE 127 (145)
T ss_dssp SS--SEEEEEE-SH----HHHTTTHHHHHHHHHHHHCTSCCCCSTTTTEEEEEESSS-SSGGGSSEEEE--------CCC
T ss_pred CCCCCcEEEeCCCc----hHHhCCCHHHHHHHHHHhCCcccccCCCceEEEEECCCc-cccCCCCEEEE--------CCE
Confidence 44456899999997 799998 699999999995 3345678999999999 89999999998 478
Q ss_pred EEeccCCCCHHHHHHH
Q 013763 256 WYGYVAPDDVPTLLEQ 271 (437)
Q Consensus 256 wYGrVtPedV~~IVee 271 (437)
||++|||+++.+||++
T Consensus 128 ~y~~vt~e~v~~il~~ 143 (145)
T PF01257_consen 128 WYGNVTPEKVDEILEE 143 (145)
T ss_dssp EEESSSCCHHHHHHHH
T ss_pred EECCCCHHHHHHHHHh
Confidence 9999999999999986
No 11
>PRK07539 NADH dehydrogenase subunit E; Validated
Probab=98.94 E-value=1.5e-09 Score=99.16 Aligned_cols=78 Identities=17% Similarity=0.399 Sum_probs=66.9
Q ss_pred CCCCccEEEEccCCCCCCCcccCc-HHHHHHHHHHHH-HcCC---CCcEEEEeecCCCCcccCccEEEEcCCCCCCcccE
Q 013763 181 EKLKGWYVFVCSHASRDRRCGVCG-PPLVSRFKEEIE-THGL---LGKVSVSPCSHIGGHKYAGNVIIFGSNVNGEVTGH 255 (437)
Q Consensus 181 e~l~~~~ILVCtHg~RD~rCGi~G-~~L~~aL~eel~-~~GL---~~~V~V~~tSHlGGHcfAGnVIv~~P~~~g~~~Gv 255 (437)
++..+.+|+||... +|..+| ..|+++|+++|. +.|. ++.+.+..++|+ |.|..||+|.+. +.
T Consensus 70 ~p~gk~~I~VC~g~----~C~~~Ga~~l~~~l~~~L~i~~g~tt~dg~~~l~~~~Cl-G~C~~gPvv~V~--------~~ 136 (154)
T PRK07539 70 QPVGRHVIQVCTST----PCWLRGGEAILAALKKKLGIKPGETTADGRFTLLEVECL-GACDNAPVVMIN--------DD 136 (154)
T ss_pred CCCCCEEEEEcCCc----hHHHCCHHHHHHHHHHHhCCCCCCcCCCCeEEEEEcccc-CccCCCCEEEEC--------CE
Confidence 33456789999997 899998 699999999997 5553 456899999999 899999999984 57
Q ss_pred EEeccCCCCHHHHHHH
Q 013763 256 WYGYVAPDDVPTLLEQ 271 (437)
Q Consensus 256 wYGrVtPedV~~IVee 271 (437)
||++|||+++++||++
T Consensus 137 ~y~~vt~e~v~~il~~ 152 (154)
T PRK07539 137 TYEDLTPEKIDELLDE 152 (154)
T ss_pred EeCCCCHHHHHHHHHh
Confidence 9999999999999975
No 12
>TIGR01958 nuoE_fam NADH-quinone oxidoreductase, E subunit. This model describes the E chain of complexes that resemble NADH-quinone oxidoreductases. The electron acceptor is a quinone, ubiquinone, in mitochondria and most bacteria, including Escherichia coli, where the recommended gene symbol is nuoB. This model does not identify proteins from chloroplast and cyanobacteria.
Probab=98.82 E-value=7.1e-09 Score=94.14 Aligned_cols=78 Identities=18% Similarity=0.459 Sum_probs=65.7
Q ss_pred CCCCccEEEEccCCCCCCCcccCc-HHHHHHHHHHHHHcC----CCCcEEEEeecCCCCcccCccEEEEcCCCCCCcccE
Q 013763 181 EKLKGWYVFVCSHASRDRRCGVCG-PPLVSRFKEEIETHG----LLGKVSVSPCSHIGGHKYAGNVIIFGSNVNGEVTGH 255 (437)
Q Consensus 181 e~l~~~~ILVCtHg~RD~rCGi~G-~~L~~aL~eel~~~G----L~~~V~V~~tSHlGGHcfAGnVIv~~P~~~g~~~Gv 255 (437)
++..+.+|+||+.. +|...| ..|+++|+++|.... .++.+.+..++|+ |.|..||++.+. +.
T Consensus 64 ~p~gk~~I~VC~g~----~C~~~Ga~~v~~~l~~~L~i~~g~~t~dg~~~l~~~~Cl-G~C~~aP~v~V~--------~~ 130 (148)
T TIGR01958 64 EPVGRYHLQVCTNV----PCALRGSEALLKYLENKLGIKPGETTPDGRFTLVEVECL-GACGNAPVMMIN--------DD 130 (148)
T ss_pred CCCCCEEEEEcCCc----hhhhcCHHHHHHHHHHHhCCCCCCCCCCCeEEEEEcCcc-CccCCCCEEEEC--------CE
Confidence 33456789999997 799998 699999999987432 2456999999999 889999999984 57
Q ss_pred EEeccCCCCHHHHHHH
Q 013763 256 WYGYVAPDDVPTLLEQ 271 (437)
Q Consensus 256 wYGrVtPedV~~IVee 271 (437)
||++|||+++++||++
T Consensus 131 ~y~~vt~e~v~~il~~ 146 (148)
T TIGR01958 131 YYEFLTPEKLDELLER 146 (148)
T ss_pred EeCCCCHHHHHHHHHh
Confidence 9999999999999975
No 13
>cd03082 TRX_Fd_NuoE_W_FDH_beta TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E family, Tungsten-containing formate dehydrogenase (W-FDH) beta subunit; composed of proteins similar to the W-FDH beta subunit of Methylobacterium extorquens. W-FDH is a heterodimeric NAD-dependent enzyme catalyzing the conversion of formate to carbon dioxide. The beta subunit is a fusion protein containing an N-terminal NuoE domain and a C-terminal NuoF domain. NuoE and NuoF are components of Nuo, a multisubunit complex catalyzing the electron transfer of NADH to quinone coupled with the transfer of protons across the membrane. Electrons are transferred from NADH to quinone through a chain of iron-sulfur clusters in Nuo, including the [2Fe-2S] cluster in NuoE and the [4Fe-4S] cluster in NuoF. In addition, NuoF is also the NADH- and FMN-binding subunit. Similarly, the beta subunit of W-FDH is most likely involved in the electron transport chain during the NAD-dependen
Probab=98.47 E-value=1.9e-07 Score=75.46 Aligned_cols=68 Identities=19% Similarity=0.299 Sum_probs=59.7
Q ss_pred cEEEEccCCCCCCCcccCc-HHHHHHHHHHHHHcCCCCcEEEEeecCCCCcccCccEEEEcCCCCCCcccEEEeccCCCC
Q 013763 186 WYVFVCSHASRDRRCGVCG-PPLVSRFKEEIETHGLLGKVSVSPCSHIGGHKYAGNVIIFGSNVNGEVTGHWYGYVAPDD 264 (437)
Q Consensus 186 ~~ILVCtHg~RD~rCGi~G-~~L~~aL~eel~~~GL~~~V~V~~tSHlGGHcfAGnVIv~~P~~~g~~~GvwYGrVtPed 264 (437)
.+|.||.+. .|...| ..|+++|+++|.. + .+.+..++|+ |.|..||++++. +..|++++|++
T Consensus 2 ~~I~vC~~~----~C~~~Ga~~l~~~l~~~L~~---~-~v~l~~~~Cl-G~C~~gP~v~V~--------~~~~~~~t~~~ 64 (72)
T cd03082 2 LTVRVCDSL----SCAMAGAEELLAALEAGLGP---E-GVRVVRAPCV-GRCERAPAALVG--------QRPVDGATPAA 64 (72)
T ss_pred eEEEEcCCh----HHHHCCHHHHHHHHHHHhCC---C-eEEEEecCcC-CccCCCCeEEEC--------CEEeCCcCHHH
Confidence 579999997 899998 6999999998843 2 5899999999 899999999985 57999999999
Q ss_pred HHHHHH
Q 013763 265 VPTLLE 270 (437)
Q Consensus 265 V~~IVe 270 (437)
++++++
T Consensus 65 i~~~~~ 70 (72)
T cd03082 65 VAAAVE 70 (72)
T ss_pred HHHHHh
Confidence 999876
No 14
>PRK05988 formate dehydrogenase subunit gamma; Validated
Probab=98.29 E-value=1.7e-06 Score=79.71 Aligned_cols=78 Identities=18% Similarity=0.318 Sum_probs=65.5
Q ss_pred CCCCccEEEEccCCCCCCCcccCc-HHHHHHHHHHHH----HcCCCCcEEEEeecCCCCcccCccEEEEcCCCCCCcccE
Q 013763 181 EKLKGWYVFVCSHASRDRRCGVCG-PPLVSRFKEEIE----THGLLGKVSVSPCSHIGGHKYAGNVIIFGSNVNGEVTGH 255 (437)
Q Consensus 181 e~l~~~~ILVCtHg~RD~rCGi~G-~~L~~aL~eel~----~~GL~~~V~V~~tSHlGGHcfAGnVIv~~P~~~g~~~Gv 255 (437)
++..+.+|-||+.. .|...| ..|+++|+++|. +-..++.+.+..+.|+ |.|..||++.+ ++.
T Consensus 71 ~p~Gk~~I~VC~~~----~C~~~G~~~ll~~l~~~Lgi~~gett~Dg~ftL~~~~Cl-G~C~~aP~~~i--------n~~ 137 (156)
T PRK05988 71 HPPGRHVLKLCRAE----ACQAMGGDALAAHAKARLGIDFHQTTADGAVTLEPVYCL-GLCACSPAAML--------DGE 137 (156)
T ss_pred CCCCCEEEEEeCCc----hhhcCCHHHHHHHHHHHhCCCCCCcCCCCeEEEEeeeec-CccCCCCeEEE--------CCE
Confidence 44566889999997 899998 699999999885 2233456899999999 88999999988 467
Q ss_pred EEeccCCCCHHHHHHH
Q 013763 256 WYGYVAPDDVPTLLEQ 271 (437)
Q Consensus 256 wYGrVtPedV~~IVee 271 (437)
.|++|||+++++|+++
T Consensus 138 ~~~~lt~~~~~~il~~ 153 (156)
T PRK05988 138 VHGRLDPQRLDALLAE 153 (156)
T ss_pred EeCCCCHHHHHHHHHH
Confidence 9999999999999986
No 15
>PRK07571 bidirectional hydrogenase complex protein HoxE; Reviewed
Probab=98.25 E-value=1.8e-06 Score=80.63 Aligned_cols=79 Identities=19% Similarity=0.321 Sum_probs=66.0
Q ss_pred CCCCccEEEEccCCCCCCCcccCc-HHHHHHHHHHHH----HcCCCCcEEEEeecCCCCcccCccEEEEcCCCCCCcccE
Q 013763 181 EKLKGWYVFVCSHASRDRRCGVCG-PPLVSRFKEEIE----THGLLGKVSVSPCSHIGGHKYAGNVIIFGSNVNGEVTGH 255 (437)
Q Consensus 181 e~l~~~~ILVCtHg~RD~rCGi~G-~~L~~aL~eel~----~~GL~~~V~V~~tSHlGGHcfAGnVIv~~P~~~g~~~Gv 255 (437)
++..+.+|-||... .|...| ..|+++|+++|. +..-++.+.+..+.|+ |.|..||++.+ ++.
T Consensus 84 ~P~Gk~~I~VC~g~----aC~~~G~~~ll~~l~~~Lgi~~gett~DG~ftL~~~~Cl-G~C~~AP~~~V--------n~~ 150 (169)
T PRK07571 84 KPSGEHTCVVCTGT----ACYVKGSAAILEDLENELGIKAGETTADGKLSLLTARCL-GACGIAPAVVF--------DGK 150 (169)
T ss_pred CCCCCEEEEEcCCh----HHHHCCcHHHHHHHHHHhCCCCCCcCCCCeEEEEEeccc-CccCCCCeEEE--------CCE
Confidence 34456789999997 899998 799999999885 2223456899999999 89999999988 578
Q ss_pred EEeccCCCCHHHHHHHH
Q 013763 256 WYGYVAPDDVPTLLEQH 272 (437)
Q Consensus 256 wYGrVtPedV~~IVeeh 272 (437)
.|++|+|+++++||++.
T Consensus 151 ~~~~lt~e~v~~il~~~ 167 (169)
T PRK07571 151 VAGKQTPESVLEKVQGW 167 (169)
T ss_pred EeCCCCHHHHHHHHHHH
Confidence 99999999999999864
No 16
>PRK12373 NADH dehydrogenase subunit E; Provisional
Probab=98.16 E-value=3.8e-06 Score=87.62 Aligned_cols=86 Identities=16% Similarity=0.316 Sum_probs=70.3
Q ss_pred CCCCc-cEEEEccCCCCCCCcccCc-HHHHHHHHHHHHHc----CCCCcEEEEeecCCCCcccCccEEEEcCCCCCCccc
Q 013763 181 EKLKG-WYVFVCSHASRDRRCGVCG-PPLVSRFKEEIETH----GLLGKVSVSPCSHIGGHKYAGNVIIFGSNVNGEVTG 254 (437)
Q Consensus 181 e~l~~-~~ILVCtHg~RD~rCGi~G-~~L~~aL~eel~~~----GL~~~V~V~~tSHlGGHcfAGnVIv~~P~~~g~~~G 254 (437)
++..+ .||.||+.. .|..+| ..|+++|+++|.-. .-++.+.+..+.|| |.|..+|||.+ ++
T Consensus 85 ~P~Gk~~~I~VC~~t----~C~l~Ga~~ll~~le~~Lgik~GeTT~DG~FTLe~veCL-GaC~~APv~~I--------nd 151 (400)
T PRK12373 85 QPVGTRAHIQVCGTT----PCMLRGSEALMAVCKSKIHAHPHELNADGTLSWEEVECL-GACVNAPMVQI--------GK 151 (400)
T ss_pred cCCCCceEEEEcCCh----HHHhCChHHHHHHHHHHhCCCCCCcCCCCeEEEEeeeec-CccCCCCeEEE--------CC
Confidence 33444 689999998 799998 69999999988522 12356889999999 89999999988 46
Q ss_pred EEEeccCCCCHHHHHHHHHhCCeecc
Q 013763 255 HWYGYVAPDDVPTLLEQHIGKGEIVD 280 (437)
Q Consensus 255 vwYGrVtPedV~~IVeehL~~G~iv~ 280 (437)
.+|++|||+.+.+||++ +..|+.+.
T Consensus 152 ~~y~~LTpe~v~~IL~~-l~ag~~~~ 176 (400)
T PRK12373 152 DYYEDLTPERLEEIIDA-FAAGKGPV 176 (400)
T ss_pred EEeCCCCHHHHHHHHHH-HhCCCCCC
Confidence 79999999999999986 68888664
No 17
>COG1905 NuoE NADH:ubiquinone oxidoreductase 24 kD subunit [Energy production and conversion]
Probab=98.03 E-value=8.2e-06 Score=75.70 Aligned_cols=79 Identities=19% Similarity=0.425 Sum_probs=66.5
Q ss_pred CCCCccEEEEccCCCCCCCcccCc-HHHHHHHHHHHH----HcCCCCcEEEEeecCCCCcccCccEEEEcCCCCCCcccE
Q 013763 181 EKLKGWYVFVCSHASRDRRCGVCG-PPLVSRFKEEIE----THGLLGKVSVSPCSHIGGHKYAGNVIIFGSNVNGEVTGH 255 (437)
Q Consensus 181 e~l~~~~ILVCtHg~RD~rCGi~G-~~L~~aL~eel~----~~GL~~~V~V~~tSHlGGHcfAGnVIv~~P~~~g~~~Gv 255 (437)
.+..+.+|-||+.. .|...| ..|.++|++.|. +-.-++.+.+.++.|+ |-|..+|++.+ ++.
T Consensus 73 ~P~Gr~~i~VC~~t----~C~l~Gs~~l~~~l~~~lgi~~gett~DG~ftl~~v~Cl-GaC~~AP~vmi--------nd~ 139 (160)
T COG1905 73 KPVGRHHIRVCTGT----ACHLKGSEALLKALEKKLGIKPGETTADGKFTLEPVECL-GACGQAPVVMI--------NDD 139 (160)
T ss_pred CcCCCeEEEEeCCc----HHhhcChHHHHHHHHHHhCCCCCCcCCCCeEEEeeeeee-cccccCCEEEE--------CCc
Confidence 45567899999998 799998 699999999886 3334567899999999 77888888887 467
Q ss_pred EEeccCCCCHHHHHHHH
Q 013763 256 WYGYVAPDDVPTLLEQH 272 (437)
Q Consensus 256 wYGrVtPedV~~IVeeh 272 (437)
.||++||+.+.+||++.
T Consensus 140 ~~~~lt~e~l~eil~~~ 156 (160)
T COG1905 140 VYGRLTPEKLEEILEKL 156 (160)
T ss_pred hhccCCHHHHHHHHHHH
Confidence 99999999999999874
No 18
>PF07845 DUF1636: Protein of unknown function (DUF1636); InterPro: IPR012863 The sequences featured in this family are derived from a number of hypothetical prokaryotic proteins. The region in question is approximately 130 amino acids long.
Probab=97.38 E-value=0.00072 Score=59.82 Aligned_cols=80 Identities=20% Similarity=0.357 Sum_probs=60.5
Q ss_pred EEEccCCCCC---CCcccC-cHHHHHHHHHHHHHcCCCCcEEEEeecCCCCcccCccEEEEcCCCCCCcccEEEeccCC-
Q 013763 188 VFVCSHASRD---RRCGVC-GPPLVSRFKEEIETHGLLGKVSVSPCSHIGGHKYAGNVIIFGSNVNGEVTGHWYGYVAP- 262 (437)
Q Consensus 188 ILVCtHg~RD---~rCGi~-G~~L~~aL~eel~~~GL~~~V~V~~tSHlGGHcfAGnVIv~~P~~~g~~~GvwYGrVtP- 262 (437)
||||+-=++. ..-+.. |..|+++|++.+...++.++|.|..+.||.|+.-.-+|.+--|++ ..+.||.++|
T Consensus 1 l~VC~tCr~~~~~~~~~~~~G~~L~~aL~~~~~~~~~~~~v~v~~v~CL~~C~r~CtVA~~~~gK----~tYlfGdl~p~ 76 (116)
T PF07845_consen 1 LFVCTTCRRSGEDPEDGPRPGAALLDALRAALADAPLPDGVEVRPVECLSACDRPCTVALQAPGK----WTYLFGDLDPD 76 (116)
T ss_pred CEEeCCCCCCCCCCCCCCChHHHHHHHHHHHHhcCCCCCceEEEeccHHhcCCCceEEEEEcCCC----cEEEEecCCcc
Confidence 6888854332 123333 579999999999998888889999999997766655555544433 6799999999
Q ss_pred CCHHHHHHH
Q 013763 263 DDVPTLLEQ 271 (437)
Q Consensus 263 edV~~IVee 271 (437)
++++.||+-
T Consensus 77 ~~a~~il~~ 85 (116)
T PF07845_consen 77 EDAEDILAF 85 (116)
T ss_pred cCHHHHHHH
Confidence 999999964
No 19
>KOG3196 consensus NADH:ubiquinone oxidoreductase, NDUFV2/24 kD subunit [Energy production and conversion]
Probab=97.37 E-value=0.00021 Score=68.25 Aligned_cols=89 Identities=17% Similarity=0.299 Sum_probs=70.8
Q ss_pred CCCCccEEEEccCCCCCCCcccCc-HHHHHHHHHHHHH-cCC---CCcEEEEeecCCCCcccCccEEEEcCCCCCCcccE
Q 013763 181 EKLKGWYVFVCSHASRDRRCGVCG-PPLVSRFKEEIET-HGL---LGKVSVSPCSHIGGHKYAGNVIIFGSNVNGEVTGH 255 (437)
Q Consensus 181 e~l~~~~ILVCtHg~RD~rCGi~G-~~L~~aL~eel~~-~GL---~~~V~V~~tSHlGGHcfAGnVIv~~P~~~g~~~Gv 255 (437)
.+..++||.||+-+ -|-.+| ..+.++.++.|.- +|- +....|.++.|+ |.|+.+|+|-+- ..
T Consensus 109 ~p~gKy~v~VC~tt----pC~lrg~d~i~ea~~k~lgi~~Gett~d~~Ftl~e~eCl-GaCvnaPmi~IN--------D~ 175 (233)
T KOG3196|consen 109 KPVGKYHVQVCTTT----PCMLRGSDDILEACKKQLGIKVGETTKDGLFTLEEVECL-GACVNAPMIAIN--------DD 175 (233)
T ss_pred cCCCCceEEEecCc----HHhhhccHHHHHHHHHHhCccccccccccceeeecchhh-hhhccCceeeec--------ch
Confidence 45678999999998 799998 6888888877642 111 234679999999 899999999885 36
Q ss_pred EEeccCCCCHHHHHHHHHhCCeecccee
Q 013763 256 WYGYVAPDDVPTLLEQHIGKGEIVDWLW 283 (437)
Q Consensus 256 wYGrVtPedV~~IVeehL~~G~iv~~l~ 283 (437)
+|+-+|++++.+|++. |.+|+..+.--
T Consensus 176 yyedlt~k~l~eIle~-L~~~k~pp~Gp 202 (233)
T KOG3196|consen 176 YYEDLTPKKLVEILED-LKAGKKPPAGP 202 (233)
T ss_pred hhccCCHHHHHHHHHH-HhcCCCCCCCC
Confidence 9999999999999986 68888765543
No 20
>cd03062 TRX_Fd_Sucrase TRX-like [2Fe-2S] Ferredoxin (Fd) family, Sucrase subfamily; composed of proteins with similarity to a novel plant enzyme, isolated from potato, which contains a Fd-like domain and exhibits sucrolytic activity. The putative active site of the Fd-like domain of the enzyme contains two cysteines and two histidines for possible binding to iron-sulfur clusters, compared to four cysteines present in the active site of Fd.
Probab=94.09 E-value=0.2 Score=42.61 Aligned_cols=83 Identities=25% Similarity=0.299 Sum_probs=47.3
Q ss_pred eEEEEEecCCCCCchhhhhhcCCChhHHHHHHHhccCCCCCcceeeeeccCCCCCCCCCceEEEec--CcEEEccCCCCC
Q 013763 83 RHVFVCYKNPSVWPPRIEAAEFDRLPRLLSAAVGARKPDMKRETRLTICEGHDGTETSNGDVLIFP--DMIRYRRLTHFD 160 (437)
Q Consensus 83 rHl~L~~e~p~~Wps~iE~~~~~~Lp~~L~aaIk~~k~~l~~~~~L~I~~g~~g~~~s~~~VLIfP--d~~~~~~l~~~d 160 (437)
.|||||+....+ +.=.. .+..|-+.|.+.+.++.. ....+..+ ++-+.-.....|+||| +.+||..++..+
T Consensus 2 ~~ilVCth~rrd-~~C~~--~g~~l~~~l~~~l~~~~~---~~v~v~~~-~clG~c~~gp~vvvyP~~~g~wy~~v~p~~ 74 (97)
T cd03062 2 PLVLVCTHGKRD-KRCGI--CGPPLAAELRAELPEHGP---GGVRVWEV-SHVGGHKFAGNVIIYPKGDGIWYGRVTPEH 74 (97)
T ss_pred CEEEEeCCCCCC-cChhh--cCHHHHHHHHHHHHHhCC---CceEEEeC-CcCCccCcCCEEEEEeCCCeeEEeecCHHH
Confidence 599999843322 11111 111233445555544431 11222222 3333222334799999 999999999999
Q ss_pred HHHHHHHHhhcC
Q 013763 161 VDTFVEEVLVKN 172 (437)
Q Consensus 161 v~~fv~~~L~~d 172 (437)
+++++++.+..+
T Consensus 75 v~~Iv~~hl~~g 86 (97)
T cd03062 75 VPPIVDRLILGG 86 (97)
T ss_pred HHHHHHHHhcCC
Confidence 999998887653
No 21
>COG5469 Predicted metal-binding protein [Function unknown]
Probab=94.07 E-value=0.27 Score=44.97 Aligned_cols=85 Identities=20% Similarity=0.359 Sum_probs=62.1
Q ss_pred CCccEEEEccCCCCCC----CcccC-cHHHHHHHHHHHHHcCCCCcEEEEeecCCCCcccCccEEEEcCCCCCCcccEEE
Q 013763 183 LKGWYVFVCSHASRDR----RCGVC-GPPLVSRFKEEIETHGLLGKVSVSPCSHIGGHKYAGNVIIFGSNVNGEVTGHWY 257 (437)
Q Consensus 183 l~~~~ILVCtHg~RD~----rCGi~-G~~L~~aL~eel~~~GL~~~V~V~~tSHlGGHcfAGnVIv~~P~~~g~~~GvwY 257 (437)
..+..+|||.-=+++. +=+-. |..|.++|.+...+-.+.+++.|..+.|+ .-|..|-+|.|..+++ .-+-|
T Consensus 15 ~~~htlfVCksC~~~~~~~~~~~p~~G~~Ll~kl~~l~qe~~~~~e~~I~~VeCl-~~C~r~c~vA~~~~~k---~sYLF 90 (143)
T COG5469 15 MPKHTLFVCKSCRDVSQEGKENGPSDGSILLDKLQELAQEWEIAHEFEIQTVECL-AACNRGCVVAFSGPGK---PSYLF 90 (143)
T ss_pred cCceEEEEeccccccccCCccCCCCcHHHHHHHHHHHHhhhhhhccceeeeeHhh-hhcCCCeEEEEecCCC---ceEEE
Confidence 4567899998643321 12222 46899999888877777777889999999 5677888887764322 45899
Q ss_pred eccCCCC-HHHHHHH
Q 013763 258 GYVAPDD-VPTLLEQ 271 (437)
Q Consensus 258 GrVtPed-V~~IVee 271 (437)
|.++|+| +..||+-
T Consensus 91 gdL~p~d~a~dLl~~ 105 (143)
T COG5469 91 GDLTPDDSASDLLEF 105 (143)
T ss_pred ccCCccccHHHHHHH
Confidence 9999999 8888864
No 22
>PF10399 UCR_Fe-S_N: Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; InterPro: IPR019470 This entry represents the TAT-signal region found in the iron-sulphur subunit of Ubiquinol-cytochrome C reductase (also known as the cytochrome bc1 complex). This enzymex is an oligomeric membrane protein complex that is a component of respiratory and photosynthetic electron transfer chains. It couples the transfer of electrons from ubiquinol to cytochrome c with the generation of a protein gradient across the membrane []. This entry is associated with IPR017941 from INTERPRO, IPR004192 from INTERPRO and IPR015248 from INTERPRO. ; GO: 0008121 ubiquinol-cytochrome-c reductase activity, 0055114 oxidation-reduction process; PDB: 1ZRT_R 2QJY_R 2FYN_L 2QJK_O 2QJP_I 2YIU_F.
Probab=79.24 E-value=1.8 Score=31.81 Aligned_cols=29 Identities=21% Similarity=0.232 Sum_probs=25.0
Q ss_pred cccchh-HHHHHHHHHHHHHhhhhhhhccC
Q 013763 409 EREDTY-AVLAVACAVVSVAVAYSCYKQLS 437 (437)
Q Consensus 409 ~~~d~~-~~~~v~~a~~~~~~a~~~y~~~~ 437 (437)
.|+|.+ .|.++++||.++++||-|.++++
T Consensus 10 ~RRdFL~~at~~~gavG~~~~a~Pfv~s~~ 39 (41)
T PF10399_consen 10 TRRDFLTIATSAVGAVGAAAAAWPFVSSMN 39 (41)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHTTS
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Confidence 467877 88899999999999999998875
No 23
>COG3411 Ferredoxin [Energy production and conversion]
Probab=77.92 E-value=1.9 Score=34.72 Aligned_cols=31 Identities=19% Similarity=0.429 Sum_probs=27.0
Q ss_pred eEEEecCcEEEccCCCCCHHHHHHHHhhcCC
Q 013763 143 DVLIFPDMIRYRRLTHFDVDTFVEEVLVKNS 173 (437)
Q Consensus 143 ~VLIfPd~~~~~~l~~~dv~~fv~~~L~~d~ 173 (437)
-+++|||..||.+++..+++.++++.|..+.
T Consensus 19 vl~vYpegvWY~~V~p~~a~rIv~~hl~~Gr 49 (64)
T COG3411 19 VLVVYPEGVWYTRVDPEDARRIVQSHLLGGR 49 (64)
T ss_pred EEEEecCCeeEeccCHHHHHHHHHHHHhCCC
Confidence 5778999999999999999999999887543
No 24
>PF06999 Suc_Fer-like: Sucrase/ferredoxin-like; InterPro: IPR009737 This family contains a number of bacterial and eukaryotic proteins approximately 400 residues long that resemble ferredoxin and appear to have sucrolytic activity [].
Probab=61.49 E-value=20 Score=34.41 Aligned_cols=28 Identities=43% Similarity=0.712 Sum_probs=25.4
Q ss_pred CCceEEEe----cCcEEEccCCCCCHHHHHHH
Q 013763 140 SNGDVLIF----PDMIRYRRLTHFDVDTFVEE 167 (437)
Q Consensus 140 s~~~VLIf----Pd~~~~~~l~~~dv~~fv~~ 167 (437)
-.++|++| |++.||-+++..+++.+++.
T Consensus 183 fAgNvIiy~~~~p~g~wyGrv~p~~v~~iv~~ 214 (230)
T PF06999_consen 183 FAGNVIIYSKPKPDGIWYGRVTPEDVEGIVDA 214 (230)
T ss_pred ecCeEEEEecCCCcEEEEEeeCHHHHHHHHHH
Confidence 45689999 99999999999999999987
No 25
>cd02980 TRX_Fd_family Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:ubiquinone oxidoreductase (NuoE). TRX-like Fds are soluble low-potential electron carriers containing a single [2Fe-2S] cluster. The exact role of TRX-like Fd is still unclear. It has been suggested that it may be involved in nitrogen fixation. Its homologous domains in large redox enzymes (such as Nuo and hydrogenases) function as electron carriers.
Probab=51.45 E-value=69 Score=24.95 Aligned_cols=24 Identities=42% Similarity=0.699 Sum_probs=20.2
Q ss_pred eEEEecCcEEEccCCCCCHHHHHH
Q 013763 143 DVLIFPDMIRYRRLTHFDVDTFVE 166 (437)
Q Consensus 143 ~VLIfPd~~~~~~l~~~dv~~fv~ 166 (437)
.|+|.|+..+|.+++..+++++++
T Consensus 52 ~v~i~~~~~~y~~v~~~~~~~il~ 75 (77)
T cd02980 52 VVVVYPDGVWYGRVTPEDVEEIVE 75 (77)
T ss_pred EEEEeCCCeEEccCCHHHHHHHHH
Confidence 688899999999988888777765
No 26
>PF07293 DUF1450: Protein of unknown function (DUF1450); InterPro: IPR009910 This entry consists of several hypothetical bacterial proteins of around 80 residues in length representing two families. Members contain four highly conserved cysteine residues and their function is unknown.
Probab=42.59 E-value=85 Score=26.20 Aligned_cols=68 Identities=10% Similarity=0.145 Sum_probs=40.6
Q ss_pred cEEEEccCCCCCCCcccCc-HHHHHHHHHHHHHcCCCCcEEEEeecCCC--CcccCccEEEEcCCCCCCcccEEEeccCC
Q 013763 186 WYVFVCSHASRDRRCGVCG-PPLVSRFKEEIETHGLLGKVSVSPCSHIG--GHKYAGNVIIFGSNVNGEVTGHWYGYVAP 262 (437)
Q Consensus 186 ~~ILVCtHg~RD~rCGi~G-~~L~~aL~eel~~~GL~~~V~V~~tSHlG--GHcfAGnVIv~~P~~~g~~~GvwYGrVtP 262 (437)
+.|=+|.+. -..| ..+++.|++ +.++.|.+.+|+| |.|...|-.++ .|-+----|+
T Consensus 3 piVefC~~N------l~~g~~~~~~~Le~-------~p~~~Vie~gCl~~Cg~C~~~pFAlV--------nG~~V~A~t~ 61 (78)
T PF07293_consen 3 PIVEFCVSN------LASGTDQVYEKLEK-------DPDIDVIEYGCLSYCGPCAKKPFALV--------NGEIVAAETA 61 (78)
T ss_pred ceEEEcccC------chhhhHHHHHHHhc-------CCCccEEEcChhhhCcCCCCCccEEE--------CCEEEecCCH
Confidence 567788874 3456 457777753 1357899999985 45667776666 3443333444
Q ss_pred CCHHHHHHHHHh
Q 013763 263 DDVPTLLEQHIG 274 (437)
Q Consensus 263 edV~~IVeehL~ 274 (437)
+++-.-|.++|.
T Consensus 62 eeL~~kI~~~i~ 73 (78)
T PF07293_consen 62 EELLEKIKEKIE 73 (78)
T ss_pred HHHHHHHHHHHh
Confidence 444444444543
No 27
>PF05961 Chordopox_A13L: Chordopoxvirus A13L protein; InterPro: IPR009236 This family consists of A13L proteins from the Chordopoxviruses. A13L or p8 is one of the three most abundant membrane proteins of the intracellular mature Vaccinia virus [].
Probab=42.39 E-value=24 Score=28.86 Aligned_cols=22 Identities=18% Similarity=0.483 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHhhhhhhhcc
Q 013763 415 AVLAVACAVVSVAVAYSCYKQL 436 (437)
Q Consensus 415 ~~~~v~~a~~~~~~a~~~y~~~ 436 (437)
+.|.++|.|+.++|-|.+|.+-
T Consensus 5 ~iLi~ICVaii~lIlY~iYnr~ 26 (68)
T PF05961_consen 5 FILIIICVAIIGLILYGIYNRK 26 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHhcc
Confidence 5688999999999999999873
No 28
>cd05565 PTS_IIB_lactose PTS_IIB_lactose: subunit IIB of enzyme II (EII) of the lactose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS) found in Firmicutes as well as Actinobacteria. In this system, EII is a lactose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. The IIC and IIB domains are expressed as a single protein from the lac operon. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include lactose, chitobiose/lichenan, ascorbate, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system.
Probab=34.28 E-value=85 Score=27.04 Aligned_cols=27 Identities=11% Similarity=0.192 Sum_probs=20.4
Q ss_pred ccCcHHHHHHHHHHHHHcCCCCcEEEEee
Q 013763 201 GVCGPPLVSRFKEEIETHGLLGKVSVSPC 229 (437)
Q Consensus 201 Gi~G~~L~~aL~eel~~~GL~~~V~V~~t 229 (437)
|..-..+.+.+++.++++|++ +.|..+
T Consensus 10 GaSSs~la~km~~~a~~~gi~--~~i~a~ 36 (99)
T cd05565 10 GGTSGLLANALNKGAKERGVP--LEAAAG 36 (99)
T ss_pred CCCHHHHHHHHHHHHHHCCCc--EEEEEe
Confidence 433468999999999999996 555544
No 29
>TIGR00853 pts-lac PTS system, lactose/cellobiose family IIB component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Lac family includes several sequenced lactose (b-galactoside) permeases of Gram-positive bacteria as well as those in E. coli. While the Lac family usually consists of two polypeptide components IIA and IICB, the Chb permease of E. coli consists of three IIA, IIB and IIC. This family is specific for the IIB subunit of the Lac PTS family.
Probab=30.73 E-value=87 Score=26.50 Aligned_cols=43 Identities=19% Similarity=0.321 Sum_probs=26.1
Q ss_pred cCcHHHHHHHHHHHHHcCCCCcEEEEeecC--CCCcccCccEEEEcC
Q 013763 202 VCGPPLVSRFKEEIETHGLLGKVSVSPCSH--IGGHKYAGNVIIFGS 246 (437)
Q Consensus 202 i~G~~L~~aL~eel~~~GL~~~V~V~~tSH--lGGHcfAGnVIv~~P 246 (437)
..-..+.+.+++.++++|++ +.|..++= +.-.-....+|++.|
T Consensus 14 ~sSS~l~~k~~~~~~~~gi~--~~v~a~~~~~~~~~~~~~Dvill~p 58 (95)
T TIGR00853 14 MSTSLLVNKMNKAAEEYGVP--VKIAAGSYGAAGEKLDDADVVLLAP 58 (95)
T ss_pred hhHHHHHHHHHHHHHHCCCc--EEEEEecHHHHHhhcCCCCEEEECc
Confidence 33346889999999999996 55555441 211112235666665
No 30
>PF12669 P12: Virus attachment protein p12 family
Probab=30.24 E-value=40 Score=26.42 Aligned_cols=10 Identities=30% Similarity=0.082 Sum_probs=6.6
Q ss_pred Hhh-hhhhhcc
Q 013763 427 AVA-YSCYKQL 436 (437)
Q Consensus 427 ~~a-~~~y~~~ 436 (437)
+|+ +++||+.
T Consensus 14 ~v~~r~~~k~~ 24 (58)
T PF12669_consen 14 YVAIRKFIKDK 24 (58)
T ss_pred HHHHHHHHHHh
Confidence 444 8888764
No 31
>PRK10310 PTS system galactitol-specific transporter subunit IIB; Provisional
Probab=27.43 E-value=92 Score=26.19 Aligned_cols=51 Identities=20% Similarity=0.265 Sum_probs=29.7
Q ss_pred EEEEccCCCCCCCcccC-cHHHHHHHHHHHHHcCCCCcEEEEeecC--CCCcccCccEEEEcC
Q 013763 187 YVFVCSHASRDRRCGVC-GPPLVSRFKEEIETHGLLGKVSVSPCSH--IGGHKYAGNVIIFGS 246 (437)
Q Consensus 187 ~ILVCtHg~RD~rCGi~-G~~L~~aL~eel~~~GL~~~V~V~~tSH--lGGHcfAGnVIv~~P 246 (437)
.++||++| .. ...+...+++.++++|++ +.|..++= +.+......+|+..+
T Consensus 5 ILvvCgsG-------~~TS~m~~~ki~~~l~~~gi~--~~v~~~~~~e~~~~~~~~D~iv~t~ 58 (94)
T PRK10310 5 IIVACGGA-------VATSTMAAEEIKELCQSHNIP--VELIQCRVNEIETYMDGVHLICTTA 58 (94)
T ss_pred EEEECCCc-------hhHHHHHHHHHHHHHHHCCCe--EEEEEecHHHHhhhcCCCCEEEECC
Confidence 35666653 43 356679999999999996 55555332 222223335555543
No 32
>PHA03049 IMV membrane protein; Provisional
Probab=27.27 E-value=59 Score=26.58 Aligned_cols=22 Identities=23% Similarity=0.588 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHHhhhhhhhcc
Q 013763 415 AVLAVACAVVSVAVAYSCYKQL 436 (437)
Q Consensus 415 ~~~~v~~a~~~~~~a~~~y~~~ 436 (437)
+++-++|.|+.++|.|.+|.+-
T Consensus 5 ~~l~iICVaIi~lIvYgiYnkk 26 (68)
T PHA03049 5 IILVIICVVIIGLIVYGIYNKK 26 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHhcc
Confidence 4677899999999999999873
No 33
>cd03416 CbiX_SirB_N Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase, responsible for the chelation of Co2+ into sirohydrochlorin, an important step in the vitamin B12 biosynthetic pathway. CbiX often contains a C-terminal histidine-rich region that may be important for metal delivery and/or storage, and may also contain an iron-sulfur center. Both are found in a wide range of bacteria. This subgroup also contains single domain proteins from archaea and bacteria which may represent the ancestral form of class II chelatases before domain duplication occurred.
Probab=27.10 E-value=2.6e+02 Score=22.95 Aligned_cols=73 Identities=15% Similarity=0.141 Sum_probs=39.9
Q ss_pred EEEccCCCCCCCcccCcHHHHHHHHHHHHHcCCCCcEEEEeecC-CC-------Cccc--CccEEEEcCCCCCCcccEEE
Q 013763 188 VFVCSHASRDRRCGVCGPPLVSRFKEEIETHGLLGKVSVSPCSH-IG-------GHKY--AGNVIIFGSNVNGEVTGHWY 257 (437)
Q Consensus 188 ILVCtHg~RD~rCGi~G~~L~~aL~eel~~~GL~~~V~V~~tSH-lG-------GHcf--AGnVIv~~P~~~g~~~GvwY 257 (437)
|++++||+++. .+...+..|.+.++++.-...|.+.-... -- -... ...|+++| -=..-
T Consensus 2 ivlv~hGS~~~----~~~~~~~~l~~~l~~~~~~~~v~~afle~~~p~~~~~l~~l~~~g~~~v~vvP-------lfl~~ 70 (101)
T cd03416 2 LLLVGHGSRDP----RAAEALEALAERLRERLPGDEVELAFLELAEPSLAEALDELAAQGATRIVVVP-------LFLLA 70 (101)
T ss_pred EEEEEcCCCCH----HHHHHHHHHHHHHHhhCCCCcEEEEEEEcCCCCHHHHHHHHHHcCCCEEEEEe-------eEeCC
Confidence 68889997775 33456777777776654222344432221 00 0000 12455554 23455
Q ss_pred eccCCCCHHHHHHH
Q 013763 258 GYVAPDDVPTLLEQ 271 (437)
Q Consensus 258 GrVtPedV~~IVee 271 (437)
|.-.-+|++.++++
T Consensus 71 G~h~~~dip~~~~~ 84 (101)
T cd03416 71 GGHVKEDIPAALAA 84 (101)
T ss_pred CccccccHHHHHHH
Confidence 66667788888875
No 34
>cd05564 PTS_IIB_chitobiose_lichenan PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N,N-diacetylchitobiose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. In the chitobiose system, these subunits are expressed as separate proteins from chbA, chbB, and chbC of the chb operon (formerly the cel (cellulose) operon). In the lichenan system, these subunits are expressed from licA, licB, and licC of the lic operon. The lic operon of Bacillus subtilis is required for the transport and degradation of oligomeric beta-glucosides, which are produced by extracellular enzymes on substrates such as lichenan or barley glucan. The lic operon is transcribed from a gammaA-dependent promoter and is inducible by lichenan, lichenan hydrolysate, and cellobiose. The IIB d
Probab=26.72 E-value=1.1e+02 Score=25.76 Aligned_cols=28 Identities=21% Similarity=0.411 Sum_probs=20.4
Q ss_pred ccCcHHHHHHHHHHHHHcCCCCcEEEEeec
Q 013763 201 GVCGPPLVSRFKEEIETHGLLGKVSVSPCS 230 (437)
Q Consensus 201 Gi~G~~L~~aL~eel~~~GL~~~V~V~~tS 230 (437)
|..-..+.+.+++.++++|++ +.|..++
T Consensus 9 G~sTS~~~~ki~~~~~~~~~~--~~v~~~~ 36 (96)
T cd05564 9 GMSTSILVKKMKKAAEKRGID--AEIEAVP 36 (96)
T ss_pred CchHHHHHHHHHHHHHHCCCc--eEEEEec
Confidence 344457889999999999996 5555444
No 35
>COG1062 AdhC Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]
Probab=26.10 E-value=1.9e+02 Score=30.80 Aligned_cols=87 Identities=21% Similarity=0.290 Sum_probs=53.3
Q ss_pred cEEEEccCCCCCCCcccCcHHHHHHHHHHHHHcCCCCcEEEEeecCCCCcccCccEEEEcCC---CCCCcccEEEeccCC
Q 013763 186 WYVFVCSHASRDRRCGVCGPPLVSRFKEEIETHGLLGKVSVSPCSHIGGHKYAGNVIIFGSN---VNGEVTGHWYGYVAP 262 (437)
Q Consensus 186 ~~ILVCtHg~RD~rCGi~G~~L~~aL~eel~~~GL~~~V~V~~tSHlGGHcfAGnVIv~~P~---~~g~~~GvwYGrVtP 262 (437)
.+.|-|++. .+.++++|+....-+.+-+...... +..|.++|- ..+.+.|.|||-+.|
T Consensus 256 d~~~e~~G~-------------~~~~~~al~~~~~~G~~v~iGv~~~------~~~i~~~~~~lv~gr~~~Gs~~G~~~p 316 (366)
T COG1062 256 DYAFECVGN-------------VEVMRQALEATHRGGTSVIIGVAGA------GQEISTRPFQLVTGRVWKGSAFGGARP 316 (366)
T ss_pred CEEEEccCC-------------HHHHHHHHHHHhcCCeEEEEecCCC------CceeecChHHeeccceEEEEeecCCcc
Confidence 677888865 2355555554332233444444433 444444331 013457899998877
Q ss_pred -CCHHHHHHHHHhCCee-ccceecccCCCCHH
Q 013763 263 -DDVPTLLEQHIGKGEI-VDWLWRGQMGLSSE 292 (437)
Q Consensus 263 -edV~~IVeehL~~G~i-v~~l~RG~~gls~~ 292 (437)
-|+++||+.+ .+|++ +.+|+-.++.|..-
T Consensus 317 ~~diP~lv~~y-~~Gkl~~d~lvt~~~~Le~I 347 (366)
T COG1062 317 RSDIPRLVDLY-MAGKLPLDRLVTHTIPLEDI 347 (366)
T ss_pred ccchhHHHHHH-HcCCCchhHHhhccccHHHH
Confidence 5999999987 56765 77788778865433
No 36
>COG3414 SgaB Phosphotransferase system, galactitol-specific IIB component [Carbohydrate transport and metabolism]
Probab=24.28 E-value=2.6e+02 Score=23.92 Aligned_cols=50 Identities=14% Similarity=0.252 Sum_probs=34.5
Q ss_pred EEEEccCCCCCCCcccCc-HHHHHHHHHHHHHcCCCCcEEEEeecCCCCcccCccEEE
Q 013763 187 YVFVCSHASRDRRCGVCG-PPLVSRFKEEIETHGLLGKVSVSPCSHIGGHKYAGNVII 243 (437)
Q Consensus 187 ~ILVCtHg~RD~rCGi~G-~~L~~aL~eel~~~GL~~~V~V~~tSHlGGHcfAGnVIv 243 (437)
.++||++| ..- -.+...+++.++++|++.++.+..++-+++..-..-+++
T Consensus 4 IL~aCG~G-------vgSS~~ik~kve~~l~~~gi~~~~~~~~v~~~~~~~~~aDiiv 54 (93)
T COG3414 4 ILAACGNG-------VGSSTMIKMKVEEVLKELGIDVDVEQCAVDEIKALTDGADIIV 54 (93)
T ss_pred EEEECCCC-------ccHHHHHHHHHHHHHHHcCCCceeeeEEecccccCCCcccEEE
Confidence 45677664 322 478899999999999976666666666666655555444
No 37
>cd05566 PTS_IIB_galactitol PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain that are expressed on three distinct polypeptide chains, in contrast to other PTS sugar transporters. The three genes encoding these subunits (gatA, gatB, and gatC) comprise the gatCBA operon. Galactitol PTS permease takes up exogenous galactitol, releasing the phosphate ester into the cytoplasm in preparation for oxidation and further metabolism via a modified glycolytic pathway called the tagatose-6-phosphate glycolytic pathway. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include galactitol, chitobiose/lichenan, ascorbate, lactose, mannitol, fructose, and
Probab=23.78 E-value=2.2e+02 Score=22.93 Aligned_cols=29 Identities=17% Similarity=0.344 Sum_probs=21.0
Q ss_pred EEEEccCCCCCCCcccCcHHHHHHHHHHHHHcCCC
Q 013763 187 YVFVCSHASRDRRCGVCGPPLVSRFKEEIETHGLL 221 (437)
Q Consensus 187 ~ILVCtHg~RD~rCGi~G~~L~~aL~eel~~~GL~ 221 (437)
.++||..| -.....+...+++.+.+.++.
T Consensus 3 ilivC~~G------~~tS~~l~~~i~~~~~~~~i~ 31 (89)
T cd05566 3 ILVACGTG------VATSTVVASKVKELLKENGID 31 (89)
T ss_pred EEEECCCC------ccHHHHHHHHHHHHHHHCCCc
Confidence 46778764 112468899999999988875
No 38
>PRK09590 celB cellobiose phosphotransferase system IIB component; Reviewed
Probab=22.15 E-value=1.7e+02 Score=25.44 Aligned_cols=26 Identities=12% Similarity=0.215 Sum_probs=19.2
Q ss_pred cCcHHHHHHHHHHHHHcCCCCcEEEEee
Q 013763 202 VCGPPLVSRFKEEIETHGLLGKVSVSPC 229 (437)
Q Consensus 202 i~G~~L~~aL~eel~~~GL~~~V~V~~t 229 (437)
..-..+.+.+++.++++|++ +.|..+
T Consensus 12 ~STSlla~k~k~~~~e~gi~--~~i~a~ 37 (104)
T PRK09590 12 MSSSMMAKKTTEYLKEQGKD--IEVDAI 37 (104)
T ss_pred hHHHHHHHHHHHHHHHCCCc--eEEEEe
Confidence 43358899999999999996 555443
No 39
>PRK13669 hypothetical protein; Provisional
Probab=20.39 E-value=2.9e+02 Score=23.20 Aligned_cols=46 Identities=15% Similarity=0.175 Sum_probs=30.1
Q ss_pred cEEEEccCCCCCCCcccCcH-HHHHHHHHHHHHcCCCCcEEEEeecCCC--CcccCccEEEE
Q 013763 186 WYVFVCSHASRDRRCGVCGP-PLVSRFKEEIETHGLLGKVSVSPCSHIG--GHKYAGNVIIF 244 (437)
Q Consensus 186 ~~ILVCtHg~RD~rCGi~G~-~L~~aL~eel~~~GL~~~V~V~~tSHlG--GHcfAGnVIv~ 244 (437)
+.|=+|.+. -..|. .+++.|+ + +.++.|.+.+|++ |.|..++-.++
T Consensus 3 piVEfC~sN------l~~G~~~~~~~Le----~---dP~~dVie~gCls~CG~C~~~~FAlV 51 (78)
T PRK13669 3 PIVEFCVSN------LASGSQAAFEKLE----K---DPNLDVLEYGCLGYCGICSEGLFALV 51 (78)
T ss_pred ceeeehhcc------hhhhHHHHHHHHH----h---CCCceEEEcchhhhCcCcccCceEEE
Confidence 567788876 24464 4466552 2 2468899999985 55667777776
Done!