Query 040644
Match_columns 267
No_of_seqs 95 out of 97
Neff 3.7
Searched_HMMs 46136
Date Fri Mar 29 10:24:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040644.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040644hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13225 DUF4033: Domain of un 100.0 2.5E-55 5.5E-60 344.1 6.0 84 159-242 1-86 (86)
2 smart00288 VHS Domain present 52.0 40 0.00088 27.9 5.5 46 80-127 2-47 (133)
3 KOG3196 NADH:ubiquinone oxidor 45.3 14 0.0003 34.3 1.9 52 149-200 99-167 (233)
4 PF00790 VHS: VHS domain; Int 37.4 1.5E+02 0.0031 24.5 6.6 31 79-109 6-36 (140)
5 PF14922 FWWh: Protein of unkn 36.2 62 0.0013 28.3 4.4 65 96-162 82-149 (161)
6 cd03569 VHS_Hrs_Vps27p VHS dom 35.9 1.6E+02 0.0036 24.8 6.8 47 79-127 5-51 (142)
7 PRK15031 5-carboxymethyl-2-hyd 33.9 12 0.00027 31.5 -0.2 26 97-122 59-84 (126)
8 PF14196 ATC_hydrolase: L-2-am 31.6 1.7E+02 0.0037 23.4 6.0 55 176-232 88-149 (149)
9 cd03561 VHS VHS domain family; 26.8 1.9E+02 0.0041 23.7 5.6 28 82-109 4-31 (133)
10 PF02962 CHMI: 5-carboxymethyl 26.3 5 0.00011 33.8 -3.8 23 96-118 57-79 (124)
11 PF11342 DUF3144: Protein of u 24.1 1.5E+02 0.0033 23.3 4.3 16 97-112 7-22 (78)
12 cd03568 VHS_STAM VHS domain fa 22.6 2.4E+02 0.0052 23.9 5.6 29 81-109 3-31 (144)
13 TIGR00273 iron-sulfur cluster- 20.5 47 0.001 33.2 1.0 48 154-203 251-307 (432)
14 PF09995 DUF2236: Uncharacteri 20.2 5.8E+02 0.013 22.2 7.9 57 69-125 120-180 (242)
15 cd03083 TRX_Fd_NuoE_hoxF TRX-l 20.2 41 0.00088 25.4 0.4 13 187-199 42-54 (80)
No 1
>PF13225 DUF4033: Domain of unknown function (DUF4033)
Probab=100.00 E-value=2.5e-55 Score=344.09 Aligned_cols=84 Identities=61% Similarity=1.242 Sum_probs=82.9
Q ss_pred cceeceeeeEee--ecCeeeeceEEeecceeeecccccccccccccCCchhhhhhhcCCcccccCCccccceeEeecCCC
Q 040644 159 WLVGPCEVRESE--VNGKTEKNVVHIKKCRFLEESNCVGMCTNLCKMPSQTFIKDSLGMPVNMVPNFDDMSCEMIFGQEP 236 (267)
Q Consensus 159 WLVGP~ev~eve--vdG~~~~sgV~IeKCRyLEeSgC~GmCvN~CKiPTQ~FF~d~~GlpLtM~PNFeD~SCqm~FG~~P 236 (267)
||||||+|+++| .+|.+++||||||||||||||||+|||+|+||+|||+||+|+|||||||+||||||||||+||++|
T Consensus 1 WLvGp~~v~~~e~~~~~~~~~sgV~i~kCRyLEes~C~g~C~N~CK~PtQ~Ff~~~~Glpl~M~PNfed~SC~~~FG~~P 80 (86)
T PF13225_consen 1 WLVGPCEVNEVEENGNGRGQKSGVHIEKCRYLEESGCAGMCVNMCKIPTQTFFKEEFGLPLTMEPNFEDFSCQMIFGQTP 80 (86)
T ss_pred CcccccEeeEeeccCCCccccceEEEEEeEEeecCCceeeeehhcccchHHHHHhccCCceEecCCCcCcEEEEEcCCCC
Confidence 999999999999 788999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCC
Q 040644 237 LASSDD 242 (267)
Q Consensus 237 Pp~eeD 242 (267)
||+|||
T Consensus 81 pp~eeD 86 (86)
T PF13225_consen 81 PPIEED 86 (86)
T ss_pred CCCCCC
Confidence 999998
No 2
>smart00288 VHS Domain present in VPS-27, Hrs and STAM. Unpublished observations. Domain of unknown function.
Probab=51.97 E-value=40 Score=27.85 Aligned_cols=46 Identities=13% Similarity=0.072 Sum_probs=32.6
Q ss_pred HHHHHHHhCCCCCCCchhHHHHHHHHHhccCCHHHHHHHHHHHHHHhC
Q 040644 80 SQSVQDATGIKNNKGGYEGMVEAAKAVLRNFDQAQQRAIVIQALERAF 127 (267)
Q Consensus 80 ~rkm~~~~G~~s~k~GYdglVe~a~~lm~~~~~~~q~~~v~~vL~sl~ 127 (267)
.+.+.+++.-....++|+..++++..|..+ +...+++++-+...|-
T Consensus 2 ~~~i~kATs~~l~~~dw~~~l~icD~i~~~--~~~~k~a~r~l~krl~ 47 (133)
T smart00288 2 ERLIDKATSPSLLEEDWELILEICDLINST--PDGPKDAVRLLKKRLN 47 (133)
T ss_pred hhHHHHHcCcCCCCcCHHHHHHHHHHHhCC--CccHHHHHHHHHHHHc
Confidence 456778888888889999999999999765 3444555554444444
No 3
>KOG3196 consensus NADH:ubiquinone oxidoreductase, NDUFV2/24 kD subunit [Energy production and conversion]
Probab=45.33 E-value=14 Score=34.32 Aligned_cols=52 Identities=33% Similarity=0.484 Sum_probs=29.3
Q ss_pred HhhhhhhccccceeceeeeEee-----ecCeee-----e--ce-----EEeecceeeeccccccccccc
Q 040644 149 FAVFTTIFFAWLVGPCEVRESE-----VNGKTE-----K--NV-----VHIKKCRFLEESNCVGMCTNL 200 (267)
Q Consensus 149 ~A~~T~~~f~WLVGP~ev~eve-----vdG~~~-----~--sg-----V~IeKCRyLEeSgC~GmCvN~ 200 (267)
.|.|-+.||.|=+|--.|.--. +-|..+ + -| |-=+.=--|+|.+|.|-|+|-
T Consensus 99 vatfYtmf~r~p~gKy~v~VC~ttpC~lrg~d~i~ea~~k~lgi~~Gett~d~~Ftl~e~eClGaCvna 167 (233)
T KOG3196|consen 99 VATFYTMFFRKPVGKYHVQVCTTTPCMLRGSDDILEACKKQLGIKVGETTKDGLFTLEEVECLGACVNA 167 (233)
T ss_pred HHHHHHHhhccCCCCceEEEecCcHHhhhccHHHHHHHHHHhCccccccccccceeeecchhhhhhccC
Confidence 5778889999999865442110 011110 0 00 101111249999999999995
No 4
>PF00790 VHS: VHS domain; InterPro: IPR002014 The VHS domain is a ~140 residues long domain, whose name is derived from its occurrence in VPS-27, Hrs and STAM. Based on regions surrounding the domain, VHS-proteins can be divided into 4 groups []: STAM/EAST/Hbp which all share the domain composition VHS-SH3-ITAM and carry one or two ubiquitin-interacting motifs Proteins with a FYVE domain (IPR000306 from INTERPRO) C-terminal to VHS which also carry one or two ubiquitin-interacting motifs GGA proteins with a domain composition VHS-GAT (GGA and Tom1) homology domain VHS domain alone or in combination with domains other than those listed above The VHS domain is always found at the N- terminus of proteins suggesting that such topology is important for function. The domain is considered to have a general membrane targeting/cargo recognition role in vesicular trafficking []. Resolution of the crystal structure of the VHS domain of Drosophila Hrs and human Tom1 revealed that it consists of eight helices arranged in a double-layer superhelix []. The existence of conserved patches of residues on the domain surface suggests that VHS domains may be involved in protein-protein recognition and docking. Overall, sequence similarity is low (approx 25%) amongst domain family members.; GO: 0006886 intracellular protein transport; PDB: 1X5B_A 2L0T_B 1DVP_A 3LDZ_C 3ZYQ_A 4AVX_A 3G2U_A 3G2W_A 1UJJ_A 3G2V_A ....
Probab=37.42 E-value=1.5e+02 Score=24.55 Aligned_cols=31 Identities=10% Similarity=0.155 Sum_probs=22.2
Q ss_pred HHHHHHHHhCCCCCCCchhHHHHHHHHHhcc
Q 040644 79 LSQSVQDATGIKNNKGGYEGMVEAAKAVLRN 109 (267)
Q Consensus 79 F~rkm~~~~G~~s~k~GYdglVe~a~~lm~~ 109 (267)
|...+.+++.-....++|+.+++++..|..+
T Consensus 6 ~~~li~kATs~~~~~~Dw~~~l~icD~i~~~ 36 (140)
T PF00790_consen 6 ITELIEKATSESLPSPDWSLILEICDLINSS 36 (140)
T ss_dssp HHHHHHHHT-TTSSS--HHHHHHHHHHHHTS
T ss_pred HHHHHHHHhCcCCCCCCHHHHHHHHHHHHcC
Confidence 4456777787777888999999999988876
No 5
>PF14922 FWWh: Protein of unknown function
Probab=36.18 E-value=62 Score=28.26 Aligned_cols=65 Identities=11% Similarity=0.267 Sum_probs=49.4
Q ss_pred hhHHHHHHHHH-hccCCHHHHHHHHHHHHHHhCCchhHHHHHhhcCcch--hhHHHHhhhhhhcccccee
Q 040644 96 YEGMVEAAKAV-LRNFDQAQQRAIVIQALERAFPRPILTMVRAVLPESK--LAREFFAVFTTIFFAWLVG 162 (267)
Q Consensus 96 YdglVe~a~~l-m~~~~~~~q~~~v~~vL~sl~Pp~~~~~fr~lfpp~~--~a~e~~A~~T~~~f~WLVG 162 (267)
|+.+.+.-..| ++- . .+-++.+.+++-++++..+-..|-..||-++ |..++-..+.-.++.|+.|
T Consensus 82 f~Ria~~yv~l~~~~-~-~~~kD~~~~~yp~~laqavy~~f~~~FP~s~~~F~~~FK~~l~~~~~~w~sG 149 (161)
T PF14922_consen 82 FNRIADNYVKLFLNL-P-SHYKDAFFKVYPDCLAQAVYYSFCECFPQSWHLFNEEFKSNLYNTCSEWISG 149 (161)
T ss_pred HHHHHHHHHHHHHhc-C-chhHHHHHHHHHHHHHHHHHHHHHHHCchHHHHHhHHHHHHHHHHHHHHHcC
Confidence 55555533333 222 1 3345678888888888888889999999987 9999999999999999998
No 6
>cd03569 VHS_Hrs_Vps27p VHS domain family, Hrs and Vps27p subfamily; composed of Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and its yeast homolog Vps27p (vacuolar protein sorting). The VHS domain, an essential part of Hrs/Vps27p, has a superhelical structure similar to the structure of ARM (Armadillo) repeats and is present at the N-termini of proteins. Hrs also contains a FYVE (Fab1p, YOTB, Vac1p, and EEA1) zinc finger domain C-terminal to VHS, as well as two coiled-coil domains. Hrs has been proposed to play a role in at least three vesicle trafficking events: exocytosis, endocytosis, and endosome to lysosome trafficking. Hrs is involved in promoting rapid recycling of endocytosed signaling receptors to the plasma membrane.
Probab=35.91 E-value=1.6e+02 Score=24.78 Aligned_cols=47 Identities=11% Similarity=0.105 Sum_probs=31.0
Q ss_pred HHHHHHHHhCCCCCCCchhHHHHHHHHHhccCCHHHHHHHHHHHHHHhC
Q 040644 79 LSQSVQDATGIKNNKGGYEGMVEAAKAVLRNFDQAQQRAIVIQALERAF 127 (267)
Q Consensus 79 F~rkm~~~~G~~s~k~GYdglVe~a~~lm~~~~~~~q~~~v~~vL~sl~ 127 (267)
|-..+.+++--....++|+..+|++..|.... ..++++++.+.+.|.
T Consensus 5 ~~~~I~kATs~~l~~~dw~~ileicD~In~~~--~~~k~a~ral~krl~ 51 (142)
T cd03569 5 FDELIEKATSELLGEPDLASILEICDMIRSKD--VQPKYAMRALKKRLL 51 (142)
T ss_pred HHHHHHHHcCcccCccCHHHHHHHHHHHhCCC--CCHHHHHHHHHHHHc
Confidence 45566777766667789999999999887543 234555554444444
No 7
>PRK15031 5-carboxymethyl-2-hydroxymuconate delta-isomerase; Provisional
Probab=33.87 E-value=12 Score=31.51 Aligned_cols=26 Identities=4% Similarity=-0.088 Sum_probs=21.3
Q ss_pred hHHHHHHHHHhccCCHHHHHHHHHHH
Q 040644 97 EGMVEAAKAVLRNFDQAQQRAIVIQA 122 (267)
Q Consensus 97 dglVe~a~~lm~~~~~~~q~~~v~~v 122 (267)
++||.+..+|+.||+.++.+++..++
T Consensus 59 ~~Fihv~l~i~~GRs~e~k~~l~~~l 84 (126)
T PRK15031 59 YAFVHMTLKIGAGRSLESRQEVGEML 84 (126)
T ss_pred CcEEEEEeeecCCCCHHHHHHHHHHH
Confidence 38999999999999998888654444
No 8
>PF14196 ATC_hydrolase: L-2-amino-thiazoline-4-carboxylic acid hydrolase
Probab=31.65 E-value=1.7e+02 Score=23.45 Aligned_cols=55 Identities=13% Similarity=0.404 Sum_probs=37.0
Q ss_pred eeceEEeecceee---ecccccccccccccCCchhhhhhhc--CCcccccCCcc--ccceeEee
Q 040644 176 EKNVVHIKKCRFL---EESNCVGMCTNLCKMPSQTFIKDSL--GMPVNMVPNFD--DMSCEMIF 232 (267)
Q Consensus 176 ~~sgV~IeKCRyL---EeSgC~GmCvN~CKiPTQ~FF~d~~--GlpLtM~PNFe--D~SCqm~F 232 (267)
..-.++|.+|-|. .+=||...|.-.|.+ ..-+-+.| |+.|+.+=.-- |--|+|.|
T Consensus 88 ~~~~~~~~~Cp~~~~~k~~G~~e~~~~~C~~--D~~~~~~~~~~~~l~r~~tla~G~~~Cdf~f 149 (149)
T PF14196_consen 88 DEFEFDFTRCPYAEFWKEYGLPELGPIYCDI--DYAMAEGFNPGIRLERTKTLADGDDCCDFRF 149 (149)
T ss_pred CeEEEEEEeChHHHHHHHcCCchHHhHhhhh--hHHHHHhCCCCcEEEEeeEEeCCCCcCccCC
Confidence 4567899999865 577888889999999 44466666 77776543221 33455544
No 9
>cd03561 VHS VHS domain family; The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal Transducing Adaptor Molecule). It has a superhelical structure similar to that of the ARM (Armadillo) repeats and is present at the N-termini of proteins involved in intracellular membrane trafficking. There are four general groups of VHS domain containing proteins based on their association with other domains. The first group consists of proteins of the STAM/EAST/Hbp family which has the domain composition VHS-SH3-ITAM. The second consists of proteins with a FYVE domain C-terminal to VHS. The third consists of GGA proteins with a domain composition VHS-GAT (GGA and TOM)-GAE (gamma-adaptin ear) domain. The fourth consists of proteins with a VHS domain alone or with domains other than those mentioned above. In GGA proteins, VHS domains are involved in cargo recognition in trans-Golgi, thereby having a general me
Probab=26.76 E-value=1.9e+02 Score=23.73 Aligned_cols=28 Identities=11% Similarity=0.038 Sum_probs=21.2
Q ss_pred HHHHHhCCCCCCCchhHHHHHHHHHhcc
Q 040644 82 SVQDATGIKNNKGGYEGMVEAAKAVLRN 109 (267)
Q Consensus 82 km~~~~G~~s~k~GYdglVe~a~~lm~~ 109 (267)
.+.+++.-....++|+..++++..|..+
T Consensus 4 ~I~kATs~~~~~~D~~~il~icd~I~~~ 31 (133)
T cd03561 4 LIERATSPSLEEPDWALNLELCDLINLK 31 (133)
T ss_pred HHHHHcCcccCCccHHHHHHHHHHHhCC
Confidence 4556666666778899999999888755
No 10
>PF02962 CHMI: 5-carboxymethyl-2-hydroxymuconate isomerase; InterPro: IPR004220 5-carboxymethyl-2-hydroxymuconate isomerase transforms 5-carboxymethyl-2-hydroxy-muconic acid into 5-oxo-pent-3-ene-1,2,5-tricarboxylic acid during the third step of the homoprotocatechuate catabolic pathway []. Homoprotocatechuate (HPC; 3,4-dihydroxyphenylacetate) is catabolized to Krebs cycle intermediates via extradiol (meta-) cleavage and the necessary enzymes are chromosomally encoded in a variety of bacteria []. 5-carboxymethyl-2-hydroxymuconate isomerase is probably a dimer of two identical subunits []. A comparison of the N-terminal half of the isomerase/decarboxylase sequence from the pathway (both encoded by the gene hpcE), with the second half showed significant similarity. This suggests that a duplication may have occurred to produce a bifunctional gene [].; PDB: 3E6Q_H 1OTG_B.
Probab=26.33 E-value=5 Score=33.75 Aligned_cols=23 Identities=17% Similarity=0.317 Sum_probs=17.0
Q ss_pred hhHHHHHHHHHhccCCHHHHHHH
Q 040644 96 YEGMVEAAKAVLRNFDQAQQRAI 118 (267)
Q Consensus 96 YdglVe~a~~lm~~~~~~~q~~~ 118 (267)
=++||-+..+|+.||+.++.+++
T Consensus 57 ~~~FvHv~l~il~GRs~e~k~~l 79 (124)
T PF02962_consen 57 DDAFVHVTLRILAGRSEEQKKAL 79 (124)
T ss_dssp -EEEEEEEEEEETT--HHHHHHH
T ss_pred CCcEEEEEeeecCCCCHHHHHHH
Confidence 56899999999999998877754
No 11
>PF11342 DUF3144: Protein of unknown function (DUF3144); InterPro: IPR021490 This family of proteins with unknown function appears to be restricted to Proteobacteria.
Probab=24.11 E-value=1.5e+02 Score=23.32 Aligned_cols=16 Identities=13% Similarity=0.175 Sum_probs=12.5
Q ss_pred hHHHHHHHHHhccCCH
Q 040644 97 EGMVEAAKAVLRNFDQ 112 (267)
Q Consensus 97 dglVe~a~~lm~~~~~ 112 (267)
|.||++|+....+-.+
T Consensus 7 D~fI~lAN~~~~~~~~ 22 (78)
T PF11342_consen 7 DEFIALANEQNKEEDA 22 (78)
T ss_pred HHHHHHHHHhhccCCc
Confidence 7899999988876543
No 12
>cd03568 VHS_STAM VHS domain family, STAM subfamily; members include STAM (Signal Transducing Adaptor Molecule), EAST (EGFR-associated protein with SH3 and TAM domains) and Hbp (Hrs-binding protein). Collectively, they are referred to as STAM. All STAMs have at their N-termini a VHS domain, which is involved in cytokine-mediated intracellular signal transduction and has a superhelical structure similar to the structure of ARM (Armadillo) repeats, followed by a SH3 (Src homology 3) domain, a well-established protein-protein interaction domain. At the C-termini of most vertebrate STAMS, an ITAM (Immunoreceptor Tyrosine-based Activation) motif is present, which mediates the binding of HRS (hepatocyte growth factor-regulated tyrosine kinase substrate) in endocytic and exocytic machineries.
Probab=22.60 E-value=2.4e+02 Score=23.95 Aligned_cols=29 Identities=17% Similarity=0.197 Sum_probs=23.4
Q ss_pred HHHHHHhCCCCCCCchhHHHHHHHHHhcc
Q 040644 81 QSVQDATGIKNNKGGYEGMVEAAKAVLRN 109 (267)
Q Consensus 81 rkm~~~~G~~s~k~GYdglVe~a~~lm~~ 109 (267)
..+.+++.-....++|+..+|++..|...
T Consensus 3 ~~iekATse~l~~~dw~~il~icD~I~~~ 31 (144)
T cd03568 3 DLVEKATDEKLTSENWGLILDVCDKVKSD 31 (144)
T ss_pred HHHHHHcCccCCCcCHHHHHHHHHHHhcC
Confidence 45667777777788999999999999764
No 13
>TIGR00273 iron-sulfur cluster-binding protein. Members of this family have a perfect 4Fe-4S binding motif C-x(2)-C-x(2)-C-x(3)-CP followed by either a perfect or imperfect (the first Cys replaced by Ser) second copy. Members probably bind two 4fe-4S iron-sulfur clusters.
Probab=20.52 E-value=47 Score=33.16 Aligned_cols=48 Identities=29% Similarity=0.629 Sum_probs=27.9
Q ss_pred hhccccceeceeeeEeeecCeeeeceEEeecc-------eeeeccccc--ccccccccC
Q 040644 154 TIFFAWLVGPCEVRESEVNGKTEKNVVHIKKC-------RFLEESNCV--GMCTNLCKM 203 (267)
Q Consensus 154 ~~~f~WLVGP~ev~evevdG~~~~sgV~IeKC-------RyLEeSgC~--GmCvN~CKi 203 (267)
+....|.-||+.-.| ++|=++-..|.|+.= +|-|...|. |.|+|.|++
T Consensus 251 ~~y~~~IsGps~t~D--~~GP~e~hvilldngr~~~~~~~~~e~~~CIrCG~C~~~CPv 307 (432)
T TIGR00273 251 TAYINVLTGPRQEGD--VDGPEEFHLILLDNGRSNILATEFREVLACIRCGACQNECPV 307 (432)
T ss_pred CcceEEeeCCCCCCC--CCCCcEEEEEEeCCCcchhhhhhhhhHhhCCCCCCccccCcc
Confidence 345678889988655 334222222322211 155666665 899999986
No 14
>PF09995 DUF2236: Uncharacterized protein conserved in bacteria (DUF2236); InterPro: IPR018713 This domain has no known function.
Probab=20.25 E-value=5.8e+02 Score=22.18 Aligned_cols=57 Identities=19% Similarity=0.161 Sum_probs=37.6
Q ss_pred cHHHHHHHHHHHHHHHHHhCCCCCC--CchhHHHHHHHHHh-ccC-CHHHHHHHHHHHHHH
Q 040644 69 GWFDQIAINHLSQSVQDATGIKNNK--GGYEGMVEAAKAVL-RNF-DQAQQRAIVIQALER 125 (267)
Q Consensus 69 s~lD~~~i~lF~rkm~~~~G~~s~k--~GYdglVe~a~~lm-~~~-~~~~q~~~v~~vL~s 125 (267)
+.-|+-.+-.|-+.+....|++.+. ..|+++.+.-+... +.. .+.+.-..+.+.|.+
T Consensus 120 t~~E~e~~~~~w~~~g~llGv~~~~~P~t~~~~~~~~~~~~~~~~l~~~~~~~~l~~~l~~ 180 (242)
T PF09995_consen 120 TDAEREAYYHEWRYVGHLLGVPPDDLPATYAEFREYLDDMLARNRLEPTPEARELADALLD 180 (242)
T ss_pred CHHHHHHHHHHHHHHHHHhCCCccCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhh
Confidence 3445556667789999999996543 68999999877665 422 444444444555544
No 15
>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=20.23 E-value=41 Score=25.43 Aligned_cols=13 Identities=31% Similarity=0.680 Sum_probs=11.2
Q ss_pred eeecccccccccc
Q 040644 187 FLEESNCVGMCTN 199 (267)
Q Consensus 187 yLEeSgC~GmCvN 199 (267)
.|+++||.|+|-.
T Consensus 42 ~l~~~gClG~C~~ 54 (80)
T cd03083 42 GLFFTSCTGLCDQ 54 (80)
T ss_pred EEEEeceecCcCC
Confidence 5899999999963
Done!