Query 030943
Match_columns 168
No_of_seqs 129 out of 471
Neff 6.6
Searched_HMMs 46136
Date Fri Mar 29 06:53:50 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030943.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030943hhsearch_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 3.2E-34 7E-39 221.6 15.2 116 35-167 1-116 (157)
2 KOG2435 Uncharacterized conser 100.0 3.2E-34 7E-39 234.9 13.4 143 19-168 100-254 (323)
3 PF03425 CBM_11: Carbohydrate 98.4 2.7E-06 5.8E-11 66.9 10.7 112 30-167 3-120 (178)
4 COG2871 NqrF Na+-transporting 25.4 75 0.0016 27.7 3.0 126 35-166 98-266 (410)
5 PF13670 PepSY_2: Peptidase pr 25.1 90 0.002 20.9 2.9 38 91-135 38-76 (83)
6 COG5007 Predicted transcriptio 23.9 90 0.0019 21.7 2.6 22 115-136 16-37 (80)
7 COG3025 Uncharacterized conser 23.6 85 0.0018 28.4 3.1 24 114-137 51-74 (432)
8 cd07374 CYTH-like_Pase CYTH-li 22.1 88 0.0019 23.7 2.7 22 114-135 49-70 (174)
9 PHA01795 hypothetical protein 20.0 1.8E+02 0.0039 24.8 4.3 10 158-167 153-162 (280)
10 PF08308 PEGA: PEGA domain; I 19.1 2.6E+02 0.0056 17.7 4.7 35 123-166 33-67 (71)
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=3.2e-34 Score=221.56 Aligned_cols=116 Identities=34% Similarity=0.671 Sum_probs=105.4
Q ss_pred EecCCccccCCeEEeccceecceeeEEEEEecCCCcceEEEEEEEecccCCCCccccccceEEEEeeCCCCCCCCCCCCC
Q 030943 35 FNFNSKEELKKWHLYSDSEYGGLSSASLEITESGNGMNGIFSGNLSLDLSEGSKWNISRSGFCGMRSKKFDGFIDLDSYD 114 (168)
Q Consensus 35 ~~F~~~~~~~~W~~~sD~vmGG~S~~~~~~~~~~~~~~~~F~G~lS~~~p~~~~~~~~~gGFasvrs~~~~~~~dls~y~ 114 (168)
|+|+++++++.|++++|.||||.|+|++.+.+++ .+++|+|+||++ |+||||+||+......+||+.|+
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 279999999999 89999999994345689999999
Q ss_pred eEEEEEeecCcEEEEEEEeCCCcCCCCCCCCCceEEEEEcCCCCEEEEEEecC
Q 030943 115 TIAMKLKGDGRCYISTIYTENWVNSPGQQEDNSWQSFVFVPKDNWYIAKMQRW 167 (168)
Q Consensus 115 gl~lrvrGDGr~Y~l~l~t~~~~~~~~~~~~~~~q~~~ft~~g~Wqtv~iPfs 167 (168)
||+|+||||||+|+++|++++.. +.+.|++.+.+++++|++|+|||+
T Consensus 70 ~l~l~vrgdGr~Y~~~l~~~~~~------~~~~y~~~f~t~~~~w~~v~iPFs 116 (157)
T PF08547_consen 70 GLELRVRGDGRTYKVNLRTDNDE------PSDSYQARFQTPPGEWQTVRIPFS 116 (157)
T ss_pred EEEEEEEcCCceEEEEEEeCCCC------CCceEEEEEeccCCccEEEEEEHH
Confidence 99999999999999999999763 577999999999999999999996
No 2
>KOG2435 consensus Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=3.2e-34 Score=234.90 Aligned_cols=143 Identities=36% Similarity=0.693 Sum_probs=129.9
Q ss_pred hcccccccCC------CCccEEEecCCccccCCeEEeccceecceeeEEEEEecCCCcceEEEEEEEecccCCCCccccc
Q 030943 19 LTWNLEELMP------PSERYIFNFNSKEELKKWHLYSDSEYGGLSSASLEITESGNGMNGIFSGNLSLDLSEGSKWNIS 92 (168)
Q Consensus 19 ~~~~~~~~~p------~~~~~l~~F~~~~~~~~W~~~sD~vmGG~S~~~~~~~~~~~~~~~~F~G~lS~~~p~~~~~~~~ 92 (168)
+.|+.++-.| ++++++|+|+.+++++.|++.||...||.|+|.|++.+.+ +.++|+|++|++.|+++ .++
T Consensus 100 l~w~~eE~~pllevr~~eakvvf~F~~kEdLdkWtv~sDsd~gG~StasLe~sd~G--~~alf~G~~ss~~~kdg--~i~ 175 (323)
T KOG2435|consen 100 LHWRGEEGHPLLEVRLEEAKVVFQFRGKEDLDKWTVTSDSDIGGRSTASLEMSDNG--QSALFYGTLSSEAPKDG--EIT 175 (323)
T ss_pred HHhccccCccceeecCCcceEEEEccChhhcceeEeecccccCCeeeEEEEecCCC--cceeeccccccccccCc--cee
Confidence 4588887777 8999999999999999999999999999999999996653 47999999999999998 589
Q ss_pred cceEEEEeeCC---CC--CCCCCCCCCeEEEEEeecCcEEEEEEEeCCCcCCCCCCCCCceEEEEEcCCC-CEEEEEEec
Q 030943 93 RSGFCGMRSKK---FD--GFIDLDSYDTIAMKLKGDGRCYISTIYTENWVNSPGQQEDNSWQSFVFVPKD-NWYIAKMQR 166 (168)
Q Consensus 93 ~gGFasvrs~~---~~--~~~dls~y~gl~lrvrGDGr~Y~l~l~t~~~~~~~~~~~~~~~q~~~ft~~g-~Wqtv~iPf 166 (168)
++|||+||+++ |. ..+|++.|+.|.||||||||.|++||+++++++ ++++++|++++||++| .||.++|||
T Consensus 176 RsGyc~Mrs~~RkaF~rk~~~dw~qfn~L~LrvRGDGRsy~inihte~~~d---q~wndsys~flft~gGp~wq~~KIPf 252 (323)
T KOG2435|consen 176 RSGYCAMRSRPRKAFERKMSYDWSQFNTLYLRVRGDGRSYMINIHTETDFD---QRWNDSYSYFLFTRGGPYWQEVKIPF 252 (323)
T ss_pred eeeeeeeeccchhhhcceecccccccceEEEEEecCCceEEEEecCccchh---hhcccceeeEEecCCCCceeEEecch
Confidence 99999999964 42 358899999999999999999999999999987 5899999999999988 999999999
Q ss_pred CC
Q 030943 167 WR 168 (168)
Q Consensus 167 s~ 168 (168)
++
T Consensus 253 SK 254 (323)
T KOG2435|consen 253 SK 254 (323)
T ss_pred hh
Confidence 85
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=98.45 E-value=2.7e-06 Score=66.91 Aligned_cols=112 Identities=20% Similarity=0.272 Sum_probs=55.0
Q ss_pred CccEEEecCCccc----cCCeEEeccceecceeeEEEEEecCCCcceEEEEEEEecccCCCCccccccceEEEEeeCCCC
Q 030943 30 SERYIFNFNSKEE----LKKWHLYSDSEYGGLSSASLEITESGNGMNGIFSGNLSLDLSEGSKWNISRSGFCGMRSKKFD 105 (168)
Q Consensus 30 ~~~~l~~F~~~~~----~~~W~~~sD~vmGG~S~~~~~~~~~~~~~~~~F~G~lS~~~p~~~~~~~~~gGFasvrs~~~~ 105 (168)
.+.+|.||.+... ...|...+|...++.++..- +.+ +..+.++.. .. ..++++++....
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 4678899987532 24699888876665444333 222 334566665 22 477888886553
Q ss_pred CCCCCCCCCeEEEEEeecC--cEEEEEEEeCCCcCCCCCCCCCceEEEEEcCCCCEEEEEEecC
Q 030943 106 GFIDLDSYDTIAMKLKGDG--RCYISTIYTENWVNSPGQQEDNSWQSFVFVPKDNWYIAKMQRW 167 (168)
Q Consensus 106 ~~~dls~y~gl~lrvrGDG--r~Y~l~l~t~~~~~~~~~~~~~~~q~~~ft~~g~Wqtv~iPfs 167 (168)
..-|+|.|+||.+.+|||| ++..|.|+.... .+.|.+ .++...+|++|+|||+
T Consensus 66 ~~~DwS~~~gl~Fw~k~dgs~~~l~vqi~d~~~--------~e~~~~-~~~~~~~W~~V~IPF~ 120 (178)
T PF03425_consen 66 DPGDWSGYGGLSFWIKGDGSGNKLRVQIKDGGD--------YEYWEA-SFTDSSTWKTVEIPFS 120 (178)
T ss_dssp S----TT--EEEEEEEE------EEEEEEEE-E--------EEEEEE-EE---SS-EEEEEEGG
T ss_pred CcCCcccCCcEEEEEEcCCCCcEEEEEEecCCc--------ceeeEe-ecCCCCcCEEEEEEHH
Confidence 3469999999999999776 555555555431 234554 3455556999999996
No 4
>COG2871 NqrF Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrF [Energy production and conversion]
Probab=25.44 E-value=75 Score=27.73 Aligned_cols=126 Identities=16% Similarity=0.245 Sum_probs=70.7
Q ss_pred EecCCccccCCeEEecc-------------ceecceeeEEEEEecCCCcceEEEEEEEecccCCCCccccccceEEEEee
Q 030943 35 FNFNSKEELKKWHLYSD-------------SEYGGLSSASLEITESGNGMNGIFSGNLSLDLSEGSKWNISRSGFCGMRS 101 (168)
Q Consensus 35 ~~F~~~~~~~~W~~~sD-------------~vmGG~S~~~~~~~~~~~~~~~~F~G~lS~~~p~~~~~~~~~gGFasvrs 101 (168)
-.|+..+.-+.|+.-|- .++| +++=+.++..+++ .|+|--.|-+.+|+..+.--.-|||.+|..
T Consensus 98 sh~skrea~eG~RLsCQ~~Vk~dm~levpEe~fg-vkkWectViSNdN--~ATFIKEL~laip~g~~vpFraGGyiQie~ 174 (410)
T COG2871 98 SHISKREAKEGWRLSCQVNVKHDMDLEVPEEVFG-VKKWECTVISNDN--KATFIKELKLAIPEGEEVPFRAGGYIQIEA 174 (410)
T ss_pred hhhhhhhhhccceEEEEecccccceeechHHhcC-ccceeEEEEeCCc--hhhhhhhheeeCCCCCccccCCCceEEEec
Confidence 34555555567776543 2233 3333333322332 499999999999988776668999999999
Q ss_pred CCC-------C----CCCCCCCCCeEEEEEeecC---cEE------------EEEEEeCCCcCCCCCCCCCce---EEEE
Q 030943 102 KKF-------D----GFIDLDSYDTIAMKLKGDG---RCY------------ISTIYTENWVNSPGQQEDNSW---QSFV 152 (168)
Q Consensus 102 ~~~-------~----~~~dls~y~gl~lrvrGDG---r~Y------------~l~l~t~~~~~~~~~~~~~~~---q~~~ 152 (168)
++. . -.-||+.|+=.+...+-|. |.| ++|+|-.+.... .++.+| ..++
T Consensus 175 pph~v~y~Dfdi~~eY~~DWdkf~lf~~vs~v~e~~~rAYSmAsYPeE~giI~~NvRIAtPPp~---~~~~PpG~mSSyi 251 (410)
T COG2871 175 PPHTVNYKDFDIPPEYHEDWDKFNLFRYVSKVDEPIIRAYSMASYPEEKGIIKLNVRIATPPPR---NPDAPPGQMSSYI 251 (410)
T ss_pred CCccccccccCCChhHhcchhhhchheeeccccHHHHHHhhhhcChhhcCeEEEEEEeccCCCC---CCCCCccceeeeE
Confidence 862 1 0245555554444444332 333 456666543311 122333 2344
Q ss_pred Ec-CCCCEEEEEEec
Q 030943 153 FV-PKDNWYIAKMQR 166 (168)
Q Consensus 153 ft-~~g~Wqtv~iPf 166 (168)
|. .+|.=-||.=||
T Consensus 252 ~sLKpGDKvtisGPf 266 (410)
T COG2871 252 WSLKPGDKVTISGPF 266 (410)
T ss_pred EeecCCCeEEEeccc
Confidence 43 567667777666
No 5
>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=25.13 E-value=90 Score=20.88 Aligned_cols=38 Identities=13% Similarity=0.260 Sum_probs=24.6
Q ss_pred cccceEEEEeeCCCCCCCCCCCCCeEEEE-EeecCcEEEEEEEeCC
Q 030943 91 ISRSGFCGMRSKKFDGFIDLDSYDTIAMK-LKGDGRCYISTIYTEN 135 (168)
Q Consensus 91 ~~~gGFasvrs~~~~~~~dls~y~gl~lr-vrGDGr~Y~l~l~t~~ 135 (168)
+...|| .|+.- .++.-.+.+++ +..||+.|.+.+...+
T Consensus 38 l~~~G~-~v~~v------e~~~~g~yev~~~~~dG~~~ev~vD~~t 76 (83)
T PF13670_consen 38 LEAQGY-QVREV------EFDDDGCYEVEARDKDGKKVEVYVDPAT 76 (83)
T ss_pred HHhcCC-ceEEE------EEcCCCEEEEEEEECCCCEEEEEEcCCC
Confidence 456777 77763 23233357777 5578999988886654
No 6
>COG5007 Predicted transcriptional regulator, BolA superfamily [Transcription]
Probab=23.91 E-value=90 Score=21.66 Aligned_cols=22 Identities=18% Similarity=0.418 Sum_probs=18.3
Q ss_pred eEEEEEeecCcEEEEEEEeCCC
Q 030943 115 TIAMKLKGDGRCYISTIYTENW 136 (168)
Q Consensus 115 gl~lrvrGDGr~Y~l~l~t~~~ 136 (168)
.=++.|.|||..|.+++-.+..
T Consensus 16 ~e~v~V~Gdg~Hf~vi~Vs~~F 37 (80)
T COG5007 16 LEEVEVEGDGSHFQVIAVSEEF 37 (80)
T ss_pred ccEEEEecCCceEEEEEehHhh
Confidence 4578899999999999987754
No 7
>COG3025 Uncharacterized conserved protein [Function unknown]
Probab=23.56 E-value=85 Score=28.41 Aligned_cols=24 Identities=21% Similarity=0.419 Sum_probs=21.3
Q ss_pred CeEEEEEeecCcEEEEEEEeCCCc
Q 030943 114 DTIAMKLKGDGRCYISTIYTENWV 137 (168)
Q Consensus 114 ~gl~lrvrGDGr~Y~l~l~t~~~~ 137 (168)
.++-||||+.|..|..+|++.+.+
T Consensus 51 ~~~gLRIR~~~~~y~~TlKtaG~v 74 (432)
T COG3025 51 HDMGLRIRREGGQYEQTLKTAGGV 74 (432)
T ss_pred CCceEEEeccCCeEEEEEEecCcc
Confidence 469999999999999999999754
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=22.12 E-value=88 Score=23.68 Aligned_cols=22 Identities=5% Similarity=-0.034 Sum_probs=19.1
Q ss_pred CeEEEEEeecCcEEEEEEEeCC
Q 030943 114 DTIAMKLKGDGRCYISTIYTEN 135 (168)
Q Consensus 114 ~gl~lrvrGDGr~Y~l~l~t~~ 135 (168)
.+|+||++.+|..|.+.+++..
T Consensus 49 ~~lrlR~r~~~~~~~~TlK~~~ 70 (174)
T cd07374 49 AGLRLRRRTGGADAGWHLKLPG 70 (174)
T ss_pred CCcEEEEEcCCCccEEEEEccC
Confidence 5799999988899999999875
No 9
>PHA01795 hypothetical protein
Probab=20.01 E-value=1.8e+02 Score=24.84 Aligned_cols=10 Identities=10% Similarity=-0.117 Sum_probs=8.4
Q ss_pred CEEEEEEecC
Q 030943 158 NWYIAKMQRW 167 (168)
Q Consensus 158 ~Wqtv~iPfs 167 (168)
+.+|++|||.
T Consensus 153 ~FeT~eLPfg 162 (280)
T PHA01795 153 TLRTAELPFG 162 (280)
T ss_pred EEEEEccccc
Confidence 4889999995
No 10
>PF08308 PEGA: PEGA domain; InterPro: IPR013229 This domain is found in both archaea and bacteria and has similarity to S-layer (surface layer) proteins. It is named after the characteristic PEGA sequence motif found in this domain. The secondary structure of this domain is predicted to be beta-strands.
Probab=19.11 E-value=2.6e+02 Score=17.69 Aligned_cols=35 Identities=9% Similarity=-0.034 Sum_probs=25.9
Q ss_pred cCcEEEEEEEeCCCcCCCCCCCCCceEEEEEcCCCCEEEEEEec
Q 030943 123 DGRCYISTIYTENWVNSPGQQEDNSWQSFVFVPKDNWYIAKMQR 166 (168)
Q Consensus 123 DGr~Y~l~l~t~~~~~~~~~~~~~~~q~~~ft~~g~Wqtv~iPf 166 (168)
..-.|.|.++.+.+. .|...+...+|+..+|.+-+
T Consensus 33 ~~G~~~v~v~~~Gy~---------~~~~~v~v~~~~~~~v~~~L 67 (71)
T PF08308_consen 33 PPGEHTVTVEKPGYE---------PYTKTVTVKPGETTTVNVTL 67 (71)
T ss_pred CCccEEEEEEECCCe---------eEEEEEEECCCCEEEEEEEE
Confidence 355888999888763 46666777788888888755
Done!