Query 030479
Match_columns 176
No_of_seqs 118 out of 492
Neff 6.7
Searched_HMMs 46136
Date Fri Mar 29 14:20:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030479.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030479hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF08547 CIA30: Complex I inte 100.0 3.9E-36 8.5E-41 234.2 15.1 124 35-175 1-124 (157)
2 KOG2435 Uncharacterized conser 100.0 1.2E-32 2.7E-37 227.2 13.5 151 18-175 99-261 (323)
3 PF03425 CBM_11: Carbohydrate 98.7 2.6E-07 5.6E-12 73.3 11.5 116 30-171 3-124 (178)
4 COG2871 NqrF Na+-transporting 43.7 1.5E+02 0.0032 26.1 7.8 134 34-171 97-271 (410)
5 PF13049 DUF3910: Protein of u 28.6 1.6E+02 0.0036 20.5 4.6 22 114-135 27-48 (93)
6 PF13670 PepSY_2: Peptidase pr 20.4 1.4E+02 0.003 20.1 3.1 37 91-134 38-75 (83)
7 COG3025 Uncharacterized conser 19.6 1.1E+02 0.0025 27.8 3.1 25 113-137 50-74 (432)
8 cd07374 CYTH-like_Pase CYTH-li 19.0 1.1E+02 0.0024 23.3 2.7 23 114-136 49-71 (174)
9 PF08533 Glyco_hydro_42C: Beta 17.8 1.1E+02 0.0023 19.3 2.0 21 115-135 1-22 (58)
10 COG5007 Predicted transcriptio 15.9 1.7E+02 0.0037 20.4 2.6 22 114-135 15-36 (80)
No 1
>PF08547 CIA30: Complex I intermediate-associated protein 30 (CIA30); InterPro: IPR013857 Mitochondrial complex I intermediate-associated protein 30 (CIA30) is present in human and mouse, and also in Schizosaccharomyces pombe (Fission yeast) which does not contain the NADH dehydrogenase component of complex I, or many of the other essential subunits. This means it is possible that it is not directly involved in oxidative phosphorylation [, ].
Probab=100.00 E-value=3.9e-36 Score=234.24 Aligned_cols=124 Identities=33% Similarity=0.631 Sum_probs=112.8
Q ss_pred EecCCccccCCeEEeccceeeceeEEEEEEecCCCcceEEEEEEEecccCCCCcccccCceeeEEeeCCCCCCCCCCCCC
Q 030479 35 FNFNSKEELKKWHLYSDSEYGGLSSASLEITESGNGMNGIFSGNLSLDLSEGSKWNISRSGFCGMRSKKFDGFIDLDSYD 114 (176)
Q Consensus 35 ~~F~~~~~~~~W~~~~D~vmGG~S~~~l~~~~~~~~~~~~F~G~ls~~~p~~~~~~ln~gGFAsvrt~~~~~~~dls~y~ 114 (176)
|+|+++++++.|++++|.||||.|+|++.+.+++ ..++|+|+||++ |+||||++|+......+||+.|+
T Consensus 1 f~F~~~~~~~~W~~~~D~vmGG~S~~~~~~~~~~--~~~~F~G~ls~~---------~~~GFa~~r~~~~~~~~dls~y~ 69 (157)
T PF08547_consen 1 FDFNSPQDLENWRVVSDTVMGGVSTASLEFSPED--GSAVFSGNLSTE---------NNGGFASVRTPSFPSPLDLSGYD 69 (157)
T ss_pred CcCCCChhhCCeEEEcceEeCCeEEEEEEEECCC--CEEEEEEEEecC---------CCCceEEEEEccCCCcCCCCCCc
Confidence 6899999999999999999999999999997532 379999999998 89999999994345789999999
Q ss_pred eEEEEEeecCcEEEEEEEeCCCcCCCCCCCCCceEEEEEeCCCCEEEEEEeCCCceecccC
Q 030479 115 TIAMKLKGDGRCYISTIYTENWVNSPGQQEDNSWQSFVFVPKDNWYIAKVSSFLLNLIFSE 175 (176)
Q Consensus 115 gl~lrvrGDGr~Y~l~l~t~~~~~~~~~~~~~~~q~~~~t~~g~W~tV~iPFs~F~~~~~~ 175 (176)
||+|+||||||+|+++|++++.. +...|++.+.+++++|++|+|||++|.|++|+
T Consensus 70 ~l~l~vrgdGr~Y~~~l~~~~~~------~~~~y~~~f~t~~~~w~~v~iPFs~F~~~~rG 124 (157)
T PF08547_consen 70 GLELRVRGDGRTYKVNLRTDNDE------PSDSYQARFQTPPGEWQTVRIPFSDFVPTFRG 124 (157)
T ss_pred EEEEEEEcCCceEEEEEEeCCCC------CCceEEEEEeccCCccEEEEEEHHHCceeeCC
Confidence 99999999999999999999762 45789999988899999999999999999986
No 2
>KOG2435 consensus Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=1.2e-32 Score=227.20 Aligned_cols=151 Identities=34% Similarity=0.637 Sum_probs=136.4
Q ss_pred hhcccccccCC------CCccEEEecCCccccCCeEEeccceeeceeEEEEEEecCCCcceEEEEEEEecccCCCCcccc
Q 030479 18 ALTWNLEELMP------PSERYIFNFNSKEELKKWHLYSDSEYGGLSSASLEITESGNGMNGIFSGNLSLDLSEGSKWNI 91 (176)
Q Consensus 18 ~~~~~~~~l~p------~~~~~L~~F~~~~~~~~W~~~~D~vmGG~S~~~l~~~~~~~~~~~~F~G~ls~~~p~~~~~~l 91 (176)
.+.|+.++-.| ++..++|+|+.+++++.|++.+|...||.|+|.|++.+.+ +.++|+|++|++.|+++ .+
T Consensus 99 kl~w~~eE~~pllevr~~eakvvf~F~~kEdLdkWtv~sDsd~gG~StasLe~sd~G--~~alf~G~~ss~~~kdg--~i 174 (323)
T KOG2435|consen 99 KLHWRGEEGHPLLEVRLEEAKVVFQFRGKEDLDKWTVTSDSDIGGRSTASLEMSDNG--QSALFYGTLSSEAPKDG--EI 174 (323)
T ss_pred HHHhccccCccceeecCCcceEEEEccChhhcceeEeecccccCCeeeEEEEecCCC--cceeeccccccccccCc--ce
Confidence 45578887777 7899999999999999999999999999999999997764 47999999999999998 57
Q ss_pred cCceeeEEeeCC---C--CCCCCCCCCCeEEEEEeecCcEEEEEEEeCCCcCCCCCCCCCceEEEEEeCCC-CEEEEEEe
Q 030479 92 SRSGFCGMRSKK---F--DGFIDLDSYDTIAMKLKGDGRCYISTIYTENWVNSPGQQEDNSWQSFVFVPKD-NWYIAKVS 165 (176)
Q Consensus 92 n~gGFAsvrt~~---~--~~~~dls~y~gl~lrvrGDGr~Y~l~l~t~~~~~~~~~~~~~~~q~~~~t~~g-~W~tV~iP 165 (176)
+|+|||++|+++ | ...+|++.|+.|.||||||||.|+++|+++.++| +.+.++|+|++||++| .||.++||
T Consensus 175 ~RsGyc~Mrs~~RkaF~rk~~~dw~qfn~L~LrvRGDGRsy~inihte~~~d---q~wndsys~flft~gGp~wq~~KIP 251 (323)
T KOG2435|consen 175 TRSGYCAMRSRPRKAFERKMSYDWSQFNTLYLRVRGDGRSYMINIHTETDFD---QRWNDSYSYFLFTRGGPYWQEVKIP 251 (323)
T ss_pred eeeeeeeeeccchhhhcceecccccccceEEEEEecCCceEEEEecCccchh---hhcccceeeEEecCCCCceeEEecc
Confidence 999999999954 4 2357888899999999999999999999999987 5789999999999977 99999999
Q ss_pred CCCceecccC
Q 030479 166 SFLLNLIFSE 175 (176)
Q Consensus 166 Fs~F~~~~~~ 175 (176)
|+.|-+++++
T Consensus 252 fSKff~t~kG 261 (323)
T KOG2435|consen 252 FSKFFFTNKG 261 (323)
T ss_pred hhhheecccc
Confidence 9999999876
No 3
>PF03425 CBM_11: Carbohydrate binding domain (family 11); InterPro: IPR005087 A carbohydrate-binding module (CBM) is defined as a contiguous amino acid sequence within a carbohydrate-active enzyme with a discreet fold having carbohydrate-binding activity. A few exceptions are CBMs in cellulosomal scaffolding proteins and rare instances of independent putative CBMs. The requirement of CBMs existing as modules within larger enzymes sets this class of carbohydrate-binding protein apart from other non-catalytic sugar binding proteins such as lectins and sugar transport proteins. CBMs were previously classified as cellulose-binding domains (CBDs) based on the initial discovery of several modules that bound cellulose [, ]. However, additional modules in carbohydrate-active enzymes are continually being found that bind carbohydrates other than cellulose yet otherwise meet the CBM criteria, hence the need to reclassify these polypeptides using more inclusive terminology. Previous classification of cellulose-binding domains were based on amino acid similarity. Groupings of CBDs were called "Types" and numbered with roman numerals (e.g. Type I or Type II CBDs). In keeping with the glycoside hydrolase classification, these groupings are now called families and numbered with Arabic numerals. Families 1 to 13 are the same as Types I to XIII. For a detailed review on the structure and binding modes of CBMs see []. This entry represents CBM11 from CAZY which binds both beta-1,4-glucan and beta-1,3-1,4-mixed linked glucans.; GO: 0008810 cellulase activity, 0030245 cellulose catabolic process; PDB: 1V0A_A.
Probab=98.71 E-value=2.6e-07 Score=73.32 Aligned_cols=116 Identities=19% Similarity=0.255 Sum_probs=58.8
Q ss_pred CccEEEecCCccc----cCCeEEeccceeeceeEEEEEEecCCCcceEEEEEEEecccCCCCcccccCceeeEEeeCCCC
Q 030479 30 SERYIFNFNSKEE----LKKWHLYSDSEYGGLSSASLEITESGNGMNGIFSGNLSLDLSEGSKWNISRSGFCGMRSKKFD 105 (176)
Q Consensus 30 ~~~~L~~F~~~~~----~~~W~~~~D~vmGG~S~~~l~~~~~~~~~~~~F~G~ls~~~p~~~~~~ln~gGFAsvrt~~~~ 105 (176)
.+.+|.+|.+... ...|...+|...++.++..- +.+ +..+.++.. .. ..++++++...+
T Consensus 3 ~~~~IDDFE~~~~~~~l~~~w~s~~~~~~~~~~~~~~---~~~-~~~l~~~y~-~~----------~~~~~~~v~~~l-- 65 (178)
T PF03425_consen 3 PPLLIDDFEDYDGDNALQGAWYSYNDDGPGLSLTISD---PDG-GKALAISYD-GG----------GSGGWAGVTKDL-- 65 (178)
T ss_dssp SEEEEE-SSSS----------EEEEETT-EEEEEEEE----SS-SEEEEEEEE-------------SS-EEEEE-EE---
T ss_pred ccceeEcccCCCCccceeeeeeccCCCCceeEEEeeC---CCC-CcEEEEEEe-cC----------CCCceEEEecCC--
Confidence 4578889987532 24699888876665444333 222 335666665 22 478888886654
Q ss_pred CCCCCCCCCeEEEEEeecC--cEEEEEEEeCCCcCCCCCCCCCceEEEEEeCCCCEEEEEEeCCCcee
Q 030479 106 GFIDLDSYDTIAMKLKGDG--RCYISTIYTENWVNSPGQQEDNSWQSFVFVPKDNWYIAKVSSFLLNL 171 (176)
Q Consensus 106 ~~~dls~y~gl~lrvrGDG--r~Y~l~l~t~~~~~~~~~~~~~~~q~~~~t~~g~W~tV~iPFs~F~~ 171 (176)
..-|++.|+||.|.+|+|| ++..|.|..... .+.|.+. ++...+|++|+|||++|++
T Consensus 66 ~~~DwS~~~gl~Fw~k~dgs~~~l~vqi~d~~~--------~e~~~~~-~~~~~~W~~V~IPF~~f~~ 124 (178)
T PF03425_consen 66 DPGDWSGYGGLSFWIKGDGSGNKLRVQIKDGGD--------YEYWEAS-FTDSSTWKTVEIPFSDFTQ 124 (178)
T ss_dssp S----TT--EEEEEEEE------EEEEEEEE-E--------EEEEEEE-E---SS-EEEEEEGGG-EE
T ss_pred CcCCcccCCcEEEEEEcCCCCcEEEEEEecCCc--------ceeeEee-cCCCCcCEEEEEEHHHccc
Confidence 4569999999999999765 556666655531 1345543 4444559999999999986
No 4
>COG2871 NqrF Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrF [Energy production and conversion]
Probab=43.67 E-value=1.5e+02 Score=26.14 Aligned_cols=134 Identities=15% Similarity=0.220 Sum_probs=78.6
Q ss_pred EEecCCccccCCeEEeccc-------------eeeceeEEEEEEecCCCcceEEEEEEEecccCCCCcccccCceeeEEe
Q 030479 34 IFNFNSKEELKKWHLYSDS-------------EYGGLSSASLEITESGNGMNGIFSGNLSLDLSEGSKWNISRSGFCGMR 100 (176)
Q Consensus 34 L~~F~~~~~~~~W~~~~D~-------------vmGG~S~~~l~~~~~~~~~~~~F~G~ls~~~p~~~~~~ln~gGFAsvr 100 (176)
+-.|+..+.-+.|+..+-. ++ |.++=.-++..++| .|+|--+|.+.+|+..++--.-|||.+|.
T Consensus 97 ~sh~skrea~eG~RLsCQ~~Vk~dm~levpEe~f-gvkkWectViSNdN--~ATFIKEL~laip~g~~vpFraGGyiQie 173 (410)
T COG2871 97 LSHISKREAKEGWRLSCQVNVKHDMDLEVPEEVF-GVKKWECTVISNDN--KATFIKELKLAIPEGEEVPFRAGGYIQIE 173 (410)
T ss_pred hhhhhhhhhhccceEEEEecccccceeechHHhc-CccceeEEEEeCCc--hhhhhhhheeeCCCCCccccCCCceEEEe
Confidence 3355555555788876543 23 44432222222222 69999999999999887777899999999
Q ss_pred eCCC-------CC----CCCCCCCCeEEEEEeecC---cEE------------EEEEEeCCCcC-CCCCCCCCceEEEEE
Q 030479 101 SKKF-------DG----FIDLDSYDTIAMKLKGDG---RCY------------ISTIYTENWVN-SPGQQEDNSWQSFVF 153 (176)
Q Consensus 101 t~~~-------~~----~~dls~y~gl~lrvrGDG---r~Y------------~l~l~t~~~~~-~~~~~~~~~~q~~~~ 153 (176)
.+.. +. .-|++.|+=.+...+-|. |.| ++|+|-..... .|+..+...- .+++
T Consensus 174 ~pph~v~y~Dfdi~~eY~~DWdkf~lf~~vs~v~e~~~rAYSmAsYPeE~giI~~NvRIAtPPp~~~~~PpG~mS-Syi~ 252 (410)
T COG2871 174 APPHTVNYKDFDIPPEYHEDWDKFNLFRYVSKVDEPIIRAYSMASYPEEKGIIKLNVRIATPPPRNPDAPPGQMS-SYIW 252 (410)
T ss_pred cCCccccccccCCChhHhcchhhhchheeeccccHHHHHHhhhhcChhhcCeEEEEEEeccCCCCCCCCCcccee-eeEE
Confidence 8862 10 246666666555555443 333 55666554321 1111222221 2344
Q ss_pred e-CCCCEEEEEEeCCCcee
Q 030479 154 V-PKDNWYIAKVSSFLLNL 171 (176)
Q Consensus 154 t-~~g~W~tV~iPFs~F~~ 171 (176)
. ++|.=.||.=||..|-.
T Consensus 253 sLKpGDKvtisGPfGEfFa 271 (410)
T COG2871 253 SLKPGDKVTISGPFGEFFA 271 (410)
T ss_pred eecCCCeEEEeccchhhhh
Confidence 3 57877999999988753
No 5
>PF13049 DUF3910: Protein of unknown function (DUF3910)
Probab=28.56 E-value=1.6e+02 Score=20.54 Aligned_cols=22 Identities=18% Similarity=0.348 Sum_probs=16.6
Q ss_pred CeEEEEEeecCcEEEEEEEeCC
Q 030479 114 DTIAMKLKGDGRCYISTIYTEN 135 (176)
Q Consensus 114 ~gl~lrvrGDGr~Y~l~l~t~~ 135 (176)
..|.+.+..|.++|++.+-...
T Consensus 27 ~~idfsl~~ddnryklivlk~e 48 (93)
T PF13049_consen 27 TSIDFSLENDDNRYKLIVLKHE 48 (93)
T ss_pred eEEEEEeccCCCeEEEEEEecc
Confidence 3466677899999999876653
No 6
>PF13670 PepSY_2: Peptidase propeptide and YPEB domain This Prosite motif covers only the active site. This is family M4 in the peptidase classification.
Probab=20.41 E-value=1.4e+02 Score=20.13 Aligned_cols=37 Identities=14% Similarity=0.249 Sum_probs=21.9
Q ss_pred ccCceeeEEeeCCCCCCCCCCCCCeEEEE-EeecCcEEEEEEEeC
Q 030479 91 ISRSGFCGMRSKKFDGFIDLDSYDTIAMK-LKGDGRCYISTIYTE 134 (176)
Q Consensus 91 ln~gGFAsvrt~~~~~~~dls~y~gl~lr-vrGDGr~Y~l~l~t~ 134 (176)
+...|| .|+.-. ++.-.+.+++ +..||+.|.+.+...
T Consensus 38 l~~~G~-~v~~ve------~~~~g~yev~~~~~dG~~~ev~vD~~ 75 (83)
T PF13670_consen 38 LEAQGY-QVREVE------FDDDGCYEVEARDKDGKKVEVYVDPA 75 (83)
T ss_pred HHhcCC-ceEEEE------EcCCCEEEEEEEECCCCEEEEEEcCC
Confidence 345666 666532 3233346677 447888888877554
No 7
>COG3025 Uncharacterized conserved protein [Function unknown]
Probab=19.59 E-value=1.1e+02 Score=27.84 Aligned_cols=25 Identities=20% Similarity=0.379 Sum_probs=21.6
Q ss_pred CCeEEEEEeecCcEEEEEEEeCCCc
Q 030479 113 YDTIAMKLKGDGRCYISTIYTENWV 137 (176)
Q Consensus 113 y~gl~lrvrGDGr~Y~l~l~t~~~~ 137 (176)
-.++-||||+.|..|.+.|++...+
T Consensus 50 ~~~~gLRIR~~~~~y~~TlKtaG~v 74 (432)
T COG3025 50 RHDMGLRIRREGGQYEQTLKTAGGV 74 (432)
T ss_pred hCCceEEEeccCCeEEEEEEecCcc
Confidence 3569999999999999999999754
No 8
>cd07374 CYTH-like_Pase CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases. CYTH-like superfamily enzymes hydrolyze triphosphate-containing substrates and require metal cations as cofactors. They have a unique active site located at the center of an eight-stranded antiparallel beta barrel tunnel (the triphosphate tunnel). The name CYTH originated from the gene designation for bacterial class IV adenylyl cyclases (CyaB), and from thiamine triphosphatase. Class IV adenylate cyclases catalyze the conversion of ATP to 3',5'-cyclic AMP (cAMP) and PPi. Thiamine triphosphatase is a soluble cytosolic enzyme which converts thiamine triphosphate to thiamine diphosphate. This domain superfamily also contains RNA triphosphatases, membrane-associated polyphosphate polymerases, tripolyphosphatases, nucleoside triphosphatases, nucleoside tetraphosphatases and other proteins with unknown functions.
Probab=18.99 E-value=1.1e+02 Score=23.31 Aligned_cols=23 Identities=4% Similarity=-0.090 Sum_probs=19.5
Q ss_pred CeEEEEEeecCcEEEEEEEeCCC
Q 030479 114 DTIAMKLKGDGRCYISTIYTENW 136 (176)
Q Consensus 114 ~gl~lrvrGDGr~Y~l~l~t~~~ 136 (176)
.+|+||++.+|..|.+.+++...
T Consensus 49 ~~lrlR~r~~~~~~~~TlK~~~~ 71 (174)
T cd07374 49 AGLRLRRRTGGADAGWHLKLPGG 71 (174)
T ss_pred CCcEEEEEcCCCccEEEEEccCC
Confidence 67999999888899999998753
No 9
>PF08533 Glyco_hydro_42C: Beta-galactosidase C-terminal domain; InterPro: IPR013739 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. This domain is found at the C terminus of beta-galactosidase enzymes that belong to the glycosyl hydrolase 42 family []. ; GO: 0004565 beta-galactosidase activity; PDB: 1KWK_A 1KWG_A.
Probab=17.84 E-value=1.1e+02 Score=19.30 Aligned_cols=21 Identities=14% Similarity=0.395 Sum_probs=12.5
Q ss_pred eEEEEEe-ecCcEEEEEEEeCC
Q 030479 115 TIAMKLK-GDGRCYISTIYTEN 135 (176)
Q Consensus 115 gl~lrvr-GDGr~Y~l~l~t~~ 135 (176)
||++.+| +|+..|.+-+.-.+
T Consensus 1 GVev~~R~~~~~~y~F~~N~s~ 22 (58)
T PF08533_consen 1 GVEVTVRENDGGRYLFLLNFSD 22 (58)
T ss_dssp TEEEEE----ETTEEEEEE-SS
T ss_pred CeEEEEEEcCCCEEEEEEECCC
Confidence 5777777 45578888887664
No 10
>COG5007 Predicted transcriptional regulator, BolA superfamily [Transcription]
Probab=15.87 E-value=1.7e+02 Score=20.43 Aligned_cols=22 Identities=18% Similarity=0.353 Sum_probs=18.2
Q ss_pred CeEEEEEeecCcEEEEEEEeCC
Q 030479 114 DTIAMKLKGDGRCYISTIYTEN 135 (176)
Q Consensus 114 ~gl~lrvrGDGr~Y~l~l~t~~ 135 (176)
.+=++.|.|||.-|.+++-.+.
T Consensus 15 ~~e~v~V~Gdg~Hf~vi~Vs~~ 36 (80)
T COG5007 15 PLEEVEVEGDGSHFQVIAVSEE 36 (80)
T ss_pred CccEEEEecCCceEEEEEehHh
Confidence 3457889999999999997764
Done!